<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-15 20:21:54"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U344314" ref_strand="+" ref_description="SGN-U344314        Tomato 200607 #1 [1 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein, low similarity to BRE alpha b isoform (Homo sapiens) GI:16326573 | chr5:16999544-17002112 FORWARD | Aliases: MDH9.17, MDH9_17(evalue: 6e-93, score=337) genbank/nr: gi|55167890|gb|AAV43777.1| At5g42470 [Arabidopsis thaliana] >gi|52627091|gb|AAU84672.1| At5g42470 [Arabidopsis thaliana] >gi|42568272|ref|NP_199062.2| expressed protein [Arabidopsis thaliana] (evalue: 5e-91, score=337)">
      <seq>cgatttatcagacggagcccgtatccatccgtatcgttgccggattaaaaaaagcaccgattgaactccgacggctgttaaagcaatctgtgtgaaattccgacgattctccgccatggcgatcgacgcagtccctccactcatcgctgcacagctgaattacatagtcactcacgctccattctctgttaaggtagaaaatatgtgttcaggatgcaaaaacactggtttgcttgatcggttctcgttagtaatccccttctgtcttgatttcatcaaatgggatgtgatgtacaatgctgtgtatccattagcagcaccagatgttatatttgggtcggaagatgaaacttttcgaccttatcatgctgtcagtgatgctagtgactcaaagtcattgaagaaccctcttactgactggaataatagagatccgactagtcttttcactctggttctgcagctgagggagttgtacaaggcgtaccaaaagaaaagagttgaacaagttgatgatgacaggttgaagtttgaaatcagcacaatgctttccagagaggggattgaaatgtctttgagttcaaatattgataagccagaagaggttaaatttgctgtcccactgctggatttggatttaaacaaaatggttgcaggatccacttggcgccatccacagaagatatacctacaggttatatatccagttggcaggaaatactccagtgctccttctgccccacgtttgaaattggtatcttctcctgaattgaaggctgtcttctcaattgatgatttcaggcttcctccatggttggatggaatgtgtatggctgagtaccttccgacattagaagagatgcttgaatcacagattaaagatgcagttgcatccattgaaagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0096I08.1" temp_strand="-" temp_description="C04HBa0096I08.1  CU469513.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0096I08 sequenced_by:sanger upload_account_name:uk">
        <position start="6630" stop="2235"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6330" g_stop="6138" g_length="193"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="193" r_length="193" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6137" i_stop="6045" i_length="93">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.549" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6044" g_stop="5957" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="194" r_stop="281" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="5956" i_stop="5835" i_length="122">
            <donor d_prob="0.923" d_score="1.00"/>
            <acceptor a_prob="0.992" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="5834" g_stop="5648" g_length="187"/>
          <reference_exon_boundary r_type="cDNA" r_start="282" r_stop="468" r_length="187" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="5647" i_stop="5551" i_length="97">
            <donor d_prob="0.803" d_score="1.00"/>
            <acceptor a_prob="0.961" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="5550" g_stop="5460" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="469" r_stop="559" r_length="91" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="5459" i_stop="3948" i_length="1512">
            <donor d_prob="0.985" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="3947" g_stop="3912" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="560" r_stop="595" r_length="36" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="3911" i_stop="3785" i_length="127">
            <donor d_prob="0.988" d_score="0.00"/>
            <acceptor a_prob="0.765" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="3784" g_stop="3686" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="596" r_stop="694" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="3685" i_stop="2981" i_length="705">
            <donor d_prob="0.981" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="2980" g_stop="2850" g_length="131"/>
          <reference_exon_boundary r_type="cDNA" r_start="695" r_stop="825" r_length="131" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="2849" i_stop="2700" i_length="150">
            <donor d_prob="0.307" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="2699" g_stop="2651" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="826" r_stop="874" r_length="49" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="2650" i_stop="2565" i_length="86">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="2564" g_stop="2535" g_length="30"/>
          <reference_exon_boundary r_type="cDNA" r_start="875" r_stop="904" r_length="30" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0096I08.1" gen_strand="-" ref_id="SGN-U344314" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>904</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0096I08.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U344314" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6330" e_stop="6138"/>
          <exon e_start="6044" e_stop="5957"/>
          <exon e_start="5834" e_stop="5648"/>
          <exon e_start="5550" e_stop="5460"/>
          <exon e_start="3947" e_stop="3912"/>
          <exon e_start="3784" e_stop="3686"/>
          <exon e_start="2980" e_stop="2850"/>
          <exon e_start="2699" e_stop="2651"/>
          <exon e_start="2564" e_stop="2535"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAATTATCAGACGGAGCCCGTATCCATCCGTATCGTTGCCGGATTAAAAAAAGCACCGATTGAACTCCGACGGCTGTTAAAGCAATCTGTGTGAAATTCCGACGATTCTCCGCCATGGCGATCGACGCAGTCCCTCCACTCATCGCTGCACAGCTGAATTACATAGTCACTCACGCTCCATTCTCTGTTAAGGTCATTTTATATGCTTTTACTCAAAAAAATTAGGTCATTTCTGTAAACTTGCTTATGGTTATTCACTGACAAGGAACTTTGAAGCTTGTTCAGGTAGAAAATATGTGTTCAGGATGCAAAAACACTGGTTTGCTTGATCGGTTCTCGTTAGTAATCCCCTTCTGTCTTGATTTCATCAAATGTGAGTTACTTTTTAGCTTTCTAATTTACATTTCTGTTCAAGGTTGCATAGTGAATTAGTCTAGCTGTATATAGTTTGATCATGTTACCAACCTGTATTTTTGATGATGAAATTTGGGGTAGGGGATGTGATGTACAATGCTGTGTATCCATTAGCAGCACCAGATGTTATATTTGGGTCGGAAGATGAAACTTTTCGACCTTATCATGCTGTCAGTGATGCTAGTGACTCAAAGTCATTGAAGAACCCTCTTACTGACTGGAATAATAGAGATCCGACTAGTCTTTTCACTCTGGTTCTGCAGCTGAGGTTGGGCATTTTCACTTTTCACATCATTAGTTTGTGTAAAGTGAGGAACATTTTCTGAAAAAAGAAGAGCTGAGATTTAGTTTTTTATGGTTGTTAGGGAGTTGTACAAGGCGTACCAAAAGAAAAGAGTTGAACAAGTTGATGATGACAGGTTGAAGTTTGAAATCAGCACAATGCTTTCCAGAGAGGTAATTCAGTTTGATCATCAAGTTGTTGTTTGGGTTAGATTATTCGTGTGCACTGGACACCTTTCGGTAGTAAGGTGATCATTGTAATTTCATTGAATTGTAAAATGGGGACAGTGTTGTGTAATCTAGCTCCAACATTTTCCGAACTTGTTAGCTTGTCATTAATTTAGTCTTTGTCTGCTGCTAATTCGCCTCCAATGTAAGTATATGATATGGAATCAGGAGTTCCTCCCAATGGAGCTAGGTGTGCTATTGCATTGGTATTATTGGCATGATCATGACAACCAACAAATTATACTTGATTCGTTATAACTAAGAAGTAAAAGGATACTTGTATTGAAAATCAAATCTTAGAGAGAATCCCAAAAAAATTGGAGTGTGTAAAGCATCTACTACAGGCATCTAGAGAAGAATCTCGGAAGGAGATTAAACGAAAAGGAGTGACGTAGAAATTTCTATATAAAAGACATTCCATTTTTCTTCAATTCCATCTTAGCTTTTGTATTGATTATAGAAATCTATAAAACTTTCCAAGACTTTCGCCAATGATTTTGGTCAAAGTACTTGACCAAATCGGACACGGATCCCACACCCGCACCGATGTCGTGTCGACACGGGTGCGGCACCCCGTGTTGGCACCAAAAGTGAAGAGTCCAAGCAACTTAGGTTATGAGCATATGTGGTCTAAGTTGCTTAGACTTTTCACTTTGGTGCCGCACCCGTATCATAACGACGTAGGTGTGGGATCTGTACCTGATTTAGTCAACTAATTATGGGTACTTTGACCAAATTCGATGCAGGAATTCGAGACATATTTGATGATTTCTGTAATCAAAACTAAGGTGAAAATGAAATACCTTGTATATATAAATATCTATTGCCACTCCCTTTCCTTTTATCTCCTTTCGGGATTCTCGTCATGTTTTCCACATAATATCTCATAATTTAGGTTTTAGAACTTTATTTTTACATATTGGAATTATTTTAAGCCGAATCCCCGCACTCGTATACATACATGGATCCGTATTCCCGAATCTTAAAATTTAGATCATAGAGGATGTGATCTCTAGATCCATACCCATAATCGGACACCTGAACCTGAGTCTGAGCAACTTAGTCTATGGTTGCTTTCTAAGGTGTATGTCAAAATTTGCTGTTTCTGACAATCGGCAGGTGGTTAACACTAGACCAAATTGATCTAGGTAGCATACATCATCCTGTGTGGTGAATTTTTAATATGTCGCTACATTTCAATTCTTACAGTGGATGGCCTATTGCTTATAGGTTTAGCTATTAAGATTATGTGTGATGGATTCATAGGGCTCATTTGAGTGCAAGTGTTAACTCTAATTTTGATGGTTTTCTTGCCTAATTTATTAGATTGGAAGACTCTATAGAGGGGAAGGGGTTTTAAAAGTGTGATCGCGGCTCTCTCCTCCTCAAGTTATAATTTGTTCTTTCTATAACGAGCTTTAATTATACTTCGTTCTGTTTTTGATCATTATGTTGCAGGGGATTGAAATGTCTTTGAGTTCAAATATTGATAAGGTACTCCACTGTCACTAACACCTGCATTTAGTAATCCCCTTTCTGCTCTTATGTGGAAGGATTATCCTGCGTAACGTTCGAATCTTGACTGTATGGATGGTTTATGTGCCATTAAATTGTAGTGTAGCCAGAAGAGGTTAAATTTGCTGTCCCACTGCTGGATTTGGATTTAAACAAAATGGTTGCAGGATCCACTTGGCGCCATCCACAGAAGATATACCTACAGGTCGGCTTTCTGAAGGATCTTTCCGTACATTGTGTATGCTTGTCTGTATATATTACCAGAAGATGAAAACACTGATTAAATTTTAATATCTCCAACACAAATGAAATAGTTATATGGTTTGATTGTCAACTGAAACTAAGCCCTAGTCTCTGAAATCTATTTTAGTTTGCTTTCCTTAGTTTTAAATGTAATAGCTATAATAATTAGAAGAATGAAGATCACATTTTAAATAAAATGTTTTTTCTTAAAGAATCATAGTAGTAGAAGATACTGATTGAAGGAGATTTAAGCATCGCATCATTTGAGGCATTATTTTTGCGTAACTCTGGGGGAAAATTAGGATGAATGAATGCAATACATCTTTTTTGTCATTTACTATTGAAGGAGATTTAAGCATGGCATCATTTGAGGATCATTTGAAGCATTATTTTTGCATATCTTCTGGGGAAAATTTGGATGAATGAATGCAATACATTTTTTTTGTCATTTACTTGCTTTCATATCATTCCTAAAGCTGCATCATTTAAGTGTTAAAACTGAAACTTTTTGTGGAGGTTAAATAGTTCATTTGTTGGTTTAATTGTTTCTTCAGCTTGTATTTATCATTGAGACTAAATGAGTAATTTGTTTGTCTAATCATCTTTTGGCTTGTCATTTTTTCTTCCTTTCTCGGTTCTCTTTTGATTAACTTTACTAATGTGACAGGTTATATATCCAGTTGGCAGGAAATACTCCAGTGCTCCTTCTGCCCCACGTTTGAAATTGGTATCTTCTCCTGAATTGAAGGCTGTCTTCTCAATTGATGATTTCAGGCTTCCTCCATGGTTGGATGGAATGTAAGTTCTGATTATTGCTGCAGAAGCAAGCAGCCTTGTCAACCCTTCTCCTATTTGAGGAGCATTTTTGTTATGCTATCCTTTCCAACAAAGTTGCGGTATCATCTTATGTTCATAATTCTTTTCTCTTTCTTCTTTTTAAATTTTTAGGTGTATGGCTGAGTACCTTCCGACATTAGAAGAGATGCTTGAATCACAGGTTAATTACTAATTTCTCCATTGGGGTTTATGCCAAATTATTTTGTTAAAGTTCTCTTTCCTGTTTTGTCCATCTGCTCTTGACAGATTAAAGATGCAGTTGCATCCATTGAAAGT</genome_strand>
        <mrna_strand>CGATTTATCAGACGGAGCCCGTATCCATCCGTATCGTTGCCGGATTAAAAAAAGCACCGATTGAACTCCGACGGCTGTTAAAGCAATCTGTGTGAAATTCCGACGATTCTCCGCCATGGCGATCGACGCAGTCCCTCCACTCATCGCTGCACAGCTGAATTACATAGTCACTCACGCTCCATTCTCTGTTAAG.............................................................................................GTAGAAAATATGTGTTCAGGATGCAAAAACACTGGTTTGCTTGATCGGTTCTCGTTAGTAATCCCCTTCTGTCTTGATTTCATCAAAT..........................................................................................................................GGGATGTGATGTACAATGCTGTGTATCCATTAGCAGCACCAGATGTTATATTTGGGTCGGAAGATGAAACTTTTCGACCTTATCATGCTGTCAGTGATGCTAGTGACTCAAAGTCATTGAAGAACCCTCTTACTGACTGGAATAATAGAGATCCGACTAGTCTTTTCACTCTGGTTCTGCAGCTGAG.................................................................................................GGAGTTGTACAAGGCGTACCAAAAGAAAAGAGTTGAACAAGTTGATGATGACAGGTTGAAGTTTGAAATCAGCACAATGCTTTCCAGAGAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGGATTGAAATGTCTTTGAGTTCAAATATTGATAAG...............................................................................................................................CCAGAAGAGGTTAAATTTGCTGTCCCACTGCTGGATTTGGATTTAAACAAAATGGTTGCAGGATCCACTTGGCGCCATCCACAGAAGATATACCTACAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTATATATCCAGTTGGCAGGAAATACTCCAGTGCTCCTTCTGCCCCACGTTTGAAATTGGTATCTTCTCCTGAATTGAAGGCTGTCTTCTCAATTGATGATTTCAGGCTTCCTCCATGGTTGGATGGAAT......................................................................................................................................................GTGTATGGCTGAGTACCTTCCGACATTAGAAGAGATGCTTGAATCACAG......................................................................................ATTAAAGATGCAGTTGCATCCATTGAAAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U322035" ref_strand="+" ref_description="SGN-U322035        Tomato 200607 #1 [8 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein, contains Pfam domain PF05003: protein of unknown function (DUF668) | chr1:10905799-10908874 REVERSE | Aliases: None(evalue: 6e-76, score=281) genbank/nr: gi|18397646|ref|NP_564362.1| expressed protein [Arabidopsis thaliana] gi|20466802|gb|AAM20718.1| unknown protein [Arabidopsis thaliana](evalue: 5e-74, score=281)">
      <seq>tgtggagaagcttgttgacattgttacgtatatacatcaagcaattgtggaagcatttggggacaacggattgacatctgctgtcaaggagcctgtgaagaaacaagaaagattgggagtagctggtctggctttacactatgctaacttagttactcaaattgataacattgcttcacggcccaccgctcttccccctaacatgagggatggattatataatggattgcctccttccataaaaacagcccttcgttcacgtctgcaggcggttgatgcaaaggaagagctcacaattccgcagattaaagcagaaatggaaaaaactcttcactggcttgtcccagtcgctgcagatactacgaaagcacaccaaggctttggatgggttggagagtgggccaacaccggaagcgagtttggcaagaagaaccctccacaagtttccctcattcgactgcagacactctaccatgctgacaaacagaaaatggactaccatgtccttgaactagtgacatggcttcaccgtttgatcagcctggtaagatataacgggcccaaggcttttccaggacgatcaccaacacgcaaaggacttaatctgcagactgagttgatgatgaacaccaactcaaaaacacctaagattcagatttctctcgaagataggactttactagagaaagtgatgaaacagaaatgtttggttcctggaagaagcaagagtcaggagtttctgttgcccaagaatcggcaaaaggtgtgggcgctaagtagaagcatgggtaactcccctcgtaccgactttcaacatccaaaggctactgttttggatatattagatggcttacattagcattttgagttgctaaagagagatctcaagcaaaaaaaaggttcatttttttgttttcttgattcttagctccctcctcctatggaactaaagcctctttgtttatagtctctccatcatatggtgattgggaaaaatgttatactgtagcatattattatcgccaaaatacatttagattctagtggaattgaatgttcatggatgacagggaatgatgtttatttgggaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0096I08.1" temp_strand="+" temp_description="C04HBa0096I08.1  CU469513.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0096I08 sequenced_by:sanger upload_account_name:uk">
        <position start="20144" stop="23438"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="20444" g_stop="20511" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="68" r_length="68" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="20512" i_stop="21314" i_length="803">
            <donor d_prob="0.890" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="21315" g_stop="21418" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="69" r_stop="172" r_length="104" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21419" i_stop="21511" i_length="93">
            <donor d_prob="0.399" d_score="1.00"/>
            <acceptor a_prob="0.969" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21512" g_stop="21628" g_length="117"/>
          <reference_exon_boundary r_type="cDNA" r_start="173" r_stop="289" r_length="117" r_score="0.991"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21629" i_stop="21764" i_length="136">
            <donor d_prob="0.972" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21765" g_stop="21841" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="290" r_stop="366" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21842" i_stop="21956" i_length="115">
            <donor d_prob="0.106" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="21957" g_stop="22001" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="367" r_stop="411" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="22002" i_stop="22458" i_length="457">
            <donor d_prob="0.962" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="22459" g_stop="23135" g_length="677"/>
          <reference_exon_boundary r_type="cDNA" r_start="412" r_stop="1088" r_length="677" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1090" polyA_stop="1114"/>
      <MATCH_line gen_id="C04HBa0096I08.1" gen_strand="+" ref_id="SGN-U322035" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>1088</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0096I08.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U322035" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="20444" e_stop="20511"/>
          <exon e_start="21315" e_stop="21418"/>
          <exon e_start="21512" e_stop="21628"/>
          <exon e_start="21765" e_stop="21841"/>
          <exon e_start="21957" e_stop="22001"/>
          <exon e_start="22459" e_stop="23135"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTGGAGAAGCTTGTTGACATTGTTACGTATATACATCAAGCAATTGTGGAAGCATTTGGGGACAACGGTATGAGAGTACATGTATTTTTTTGTTGATCAGTTTAAATTTGATGGCTGTCGTTATCAGCATTCTATTATTTGCAAATAACGAAGCTTAGAGTATCTAACCTTCATTGATGTTTGATAAATGGCTGTTTGCGCTCCACACCACTAAATTGCACCAGCCACTTCATTCTTTTGCCTCAGATACCTTTTACATGTTAACATTTTATCTTATTGAACTATTTTTCATTAATAATGGTTATAGAGGAAATCCTAAGCCAAATCCTGACTTTAAAAAAAAATGTAAAATGGTACGGGAAATTAAACAAAAGGGTAACTCCTGAGGAAAAAGGGAGGACAATCTTCAGTGTTTTTCCTTTTTCGGTCTTCAGTCCAAGTTTTCCAAGTCACTACAATTGCGTAACATTTTAGGAAAGATGACAGAGTTGTGACTAATCATTGATCTGTACATTTACCAAGCGAGGAATTCTTACTAAAGATTACGGCAAAGTCAAGCTATATATTCTCTCCGTTTCAATTTGTTTGCCCTGCTTTCTTTTTTAGTCCATTTCATAAAGTACGTCTCTTTCCTTTTTTGGCTACTCGTTAACTCCAACTGTCTATGTGACACGTTTAAGACCACAAGATTAAAAAATCTTCTTTATTTTCTTTAACTCCGGATCAATCAAAACCACACAAACAAATTGAAATGGGGGGAGTACTCTAGCTATTTACAATGCAGAGTTAACTTGCATATGTACACACATTGTCTCTTCTTTCCCAGAGTATGCTTTCTTAAATATAGACGAATCTCTATGCTTGTTGCAGGATTGACATCTGCTGTCAAGGAGCCTGTGAAGAAACAAGAAAGATTGGGAGTAGCTGGTCTGGCTTTACACTATGCTAACTTAGTTACTCAAATTGATAACATTGTAAGTTTTAGTGCTGAATTAGAGCGATACTGATTGCGCTGTTTACGACTGCTCCAATAGTATTCATAACAATGGGATTTGATATCATGTCAGGCTTCACGGCCCACCGCTCTTCCCCCTAACATGAGGGATGGATTATATAATGGATTGCCTCCTTCCATAAAAACGGCCCTTCGTTCACGTCTGCAGGCGGTTGATGCAAAGGAAGAGGTTTGTCCTCCATATTAATTTCTCATTCTTCCCCCCTTTCTCCCTTTTTCTCTTTTTGGGGTCTAATGATACCTCCCGTTTGCATTTAAGTTCTATATCTGTATAAAATAGTTTCTCCACGTTGTGCTTTTTGCAGCTCACAATTCCGCAGATTAAAGCAGAAATGGAAAAAACTCTTCACTGGCTTGTCCCAGTCGCTGCAGATACTACGAAGTATGTGTTTCGACAAAAGCTCTCCCCCCTAACCACCACCACACACACGCACAAACTTTTGCTAATATATGCTGATTCTTTTTTGTGTTTTTCTCTCTTGGCAATGGGATAACAGAGCACACCAAGGCTTTGGATGGGTTGGAGAGTGGGCCAACACCGGGTTAGTTCCATAAGTCTCTACATGAGCAAAATTGAATATTTACATTTGCAGTTTAGTTTGGATAGCATTCTTCAAGAATATAATATTTGGAGGCGGATGCAGCCATGCACTGTGGGTTCAATTGAACCTCGTTTATTCTATATAACATCATTTGTTTTGATATAATTTTTTGGTTGTGATAGTGAATGTTATTAATAGAGAATATATGATACAACATAACATGAACGATTGGTTCAAAGAAAATATGGTTGTTATATAGTTACATGCTTTATAGGATGCCAGATGGCTATTATAGAGAGGGCTGACTGTATATATAAGCATAATTTCAATAAATATTAGATTTTTGAACCCATAATTCAGTTGTACAATGATATCTGTTAAGGACTTCAAAAAATTGAAACATCAAAGTTTTAAATTTTCGATCAGCTTCTAATGTTATTGGTTTTTTCTCTTTCAGAAGCGAGTTTGGCAAGAAGAACCCTCCACAAGTTTCCCTCATTCGACTGCAGACACTCTACCATGCTGACAAACAGAAAATGGACTACCATGTCCTTGAACTAGTGACATGGCTTCACCGTTTGATCAGCCTGGTAAGATATAATGGGCCCAAGGCTTTTCCAGGACGATCACCAACACGCAAAGGACTTAATCTGCAGACTGAGTTGATGATGAACACCAACTCAAAAACACCTAAGATTCAGATTTCTCTCGAAGATAGGACTTTACTAGAGAAAGTGATGAAACAGAAATGTTTGGTTCCTGGAAGAAGCAAGAGTCAGGAGTTTCTGTTGCCCAAGAATCGGCAAAAGGTGTGGGCGCTAAGTAGAAGCATGGGTAACTCCCCTCGTACCGACTTTCAACATCCAAAGGCTACTGTTTTGGATATATTAGATGGCTTACATTAGCATTTTGAGTTGCTAAAGAGAGATCTCAAGCAAAAAAAAGGTTCATTTTTTTGTTTTCTTGATTCTTAGCTCCCTCCTCCTATGGAACTAAAGCCTCTTTGTATATAGTCTCTCCATCATATGGTGATTGGGAAAAATGTTATACTGTAGCATATTATTATCGCCAAAATACATTTAGATTCTAGTGGAATTGAATGTTCATGGATGACAGGGAATGATGTTTATTTGG</genome_strand>
        <mrna_strand>TGTGGAGAAGCTTGTTGACATTGTTACGTATATACATCAAGCAATTGTGGAAGCATTTGGGGACAACG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTGACATCTGCTGTCAAGGAGCCTGTGAAGAAACAAGAAAGATTGGGAGTAGCTGGTCTGGCTTTACACTATGCTAACTTAGTTACTCAAATTGATAACATT.............................................................................................GCTTCACGGCCCACCGCTCTTCCCCCTAACATGAGGGATGGATTATATAATGGATTGCCTCCTTCCATAAAAACAGCCCTTCGTTCACGTCTGCAGGCGGTTGATGCAAAGGAAGAG........................................................................................................................................CTCACAATTCCGCAGATTAAAGCAGAAATGGAAAAAACTCTTCACTGGCTTGTCCCAGTCGCTGCAGATACTACGAA...................................................................................................................AGCACACCAAGGCTTTGGATGGGTTGGAGAGTGGGCCAACACCGG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGCGAGTTTGGCAAGAAGAACCCTCCACAAGTTTCCCTCATTCGACTGCAGACACTCTACCATGCTGACAAACAGAAAATGGACTACCATGTCCTTGAACTAGTGACATGGCTTCACCGTTTGATCAGCCTGGTAAGATATAACGGGCCCAAGGCTTTTCCAGGACGATCACCAACACGCAAAGGACTTAATCTGCAGACTGAGTTGATGATGAACACCAACTCAAAAACACCTAAGATTCAGATTTCTCTCGAAGATAGGACTTTACTAGAGAAAGTGATGAAACAGAAATGTTTGGTTCCTGGAAGAAGCAAGAGTCAGGAGTTTCTGTTGCCCAAGAATCGGCAAAAGGTGTGGGCGCTAAGTAGAAGCATGGGTAACTCCCCTCGTACCGACTTTCAACATCCAAAGGCTACTGTTTTGGATATATTAGATGGCTTACATTAGCATTTTGAGTTGCTAAAGAGAGATCTCAAGCAAAAAAAAGGTTCATTTTTTTGTTTTCTTGATTCTTAGCTCCCTCCTCCTATGGAACTAAAGCCTCTTTGTTTATAGTCTCTCCATCATATGGTGATTGGGAAAAATGTTATACTGTAGCATATTATTATCGCCAAAATACATTTAGATTCTAGTGGAATTGAATGTTCATGGATGACAGGGAATGATGTTTATTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U332923" ref_strand="+" ref_description="SGN-U332923        Tomato 200607 #1 [2 ESTs aligned] arabidopsis/peptide: AT1G75790.1 | Symbol: SKS18 | multi-copper oxidase type I family protein, contains Pfam profile: PF00394 Multicopper oxidase | chr1:28458442-28461167 REVERSE | Aliases: F10A5.2, F10A5_2, SKS18 (evalue: 2e-80, score=221) genbank/nr: gi|21618153|gb|AAM67203.1| pectinesterase, putative [Arabidopsis thaliana](evalue: 2e-77, score=221)">
      <seq>tttacaatttctacttttgttagtgtccattcaaaactacttcactttgattgggttgtttcaatttcctctaatgcactcattggagatcctaaagaggttattatgatcaataatcagtttccagggccccttttgaacacaacaacaaatgatgtggtcattgtcaatgtttataacaacttgactgaacctttcctcatgacatggaatggagtgcaattaaggaggaattcatggcaagatggagttgaaggaaccaattgtccaattatgcctggaaaaaattggacatacaaatttcagatgaaagatcagattggaagtttcttctattttccttcactctttttccagaaagctgctggaggctatggtcctattcgaatcaacaacgttgagactgttcctcttccatttacgcgtcctgattatgaatatgatatactaattggagattggtattttgatgagtataaggacttgagaatttctctagaagatggatgcaaaatgccttttccagatgccattctcatcaatggtatgagatctgatcaagctacctttgagtttcaacccgcgggctacctatagattgagaatctcgcacataggattaaaaacaaccttaaatttcaaaatccaggatcatgaaatgcttttggtggagactgnaggagcctacacttncaaaaagtaccaccaaagtctagacatccatgttggtcaatcttattctgttcttgttactgcaaagaacacagctataatagctcgtatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0096I08.1" temp_strand="+" temp_description="C04HBa0096I08.1  CU469513.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0096I08 sequenced_by:sanger upload_account_name:uk">
        <position start="23557" stop="25855"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23857" g_stop="23955" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="99" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23956" i_stop="24065" i_length="110">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24066" g_stop="24175" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="209" r_length="110" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24176" i_stop="24616" i_length="441">
            <donor d_prob="0.977" d_score="1.00"/>
            <acceptor a_prob="0.865" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24617" g_stop="24887" g_length="271"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="480" r_length="271" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="24888" i_stop="24978" i_length="91">
            <donor d_prob="0.501" d_score="1.00"/>
            <acceptor a_prob="0.985" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="24979" g_stop="25081" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="481" r_stop="583" r_length="103" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="25082" i_stop="25354" i_length="273">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="25355" g_stop="25555" g_length="201"/>
          <reference_exon_boundary r_type="cDNA" r_start="584" r_stop="784" r_length="201" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0096I08.1" gen_strand="+" ref_id="SGN-U332923" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>784</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0096I08.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U332923" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23857" e_stop="23955"/>
          <exon e_start="24066" e_stop="24175"/>
          <exon e_start="24617" e_stop="24887"/>
          <exon e_start="24979" e_stop="25081"/>
          <exon e_start="25355" e_stop="25555"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTACAATTTCTACTTTTGTTAGTGTCCATTCAAAACTACTTCACTTTGATTGGGTTGTTTCAATTTCCTCTAATGCACTCATTGGAGATCCTAAAGAGGTCACTTTGTTTTAGTATTTTTTTTCTTAACCTCAATTTTTTTTTGTTAATTATGTTTTTTTTAAAGAATATTTAAAATAACTATTTTTTTTTTGTGATGGTGAAAACAGGTTATTATGATCAATAATCAGTTTCCAGGGCCCCTTTTGAACACAACAACAAATGATGTGGTCATTGTCAATGTTTATAACAACTTGACTGAACCTTTCCTCATGACATGGTAATTTATTTAATATTTTTGTTAGTTATTTCTAAGTATGTTTTATGACCATTCATACGTCAGCGGTGGATATAGGACGAGTTCTGTGGGTTCAATTAAACTCGTTGCTTTTAACTTGAACTAAGTATACATACACGATTTTTAACGATATTGCATATATGTAATGAAAGTCAACATGTAGGGACTACAGAAAATGCAACTATTGAGACAACTCAAAAATAAAATTAGTGAGGTAAGGTCAAGCTCGGAAAATGATTCAATGGATTCGAAAGAATAAATTTTGCTCTGCATGAATCAAGTTCTTCCATGAGACTATGATCATACTCATTTTGCTCGTTAAGTGTTAACTGTATTCTGAATTTGTCTCTGATACATTCATGATTTCTTTAGAACAACTTATATTCAATGATCTTTAACTTAAAATATTGCGAAAACTATAAGGAATGGAGTGCAATTAAGGAGGAATTCATGGCAAGATGGAGTTGAAGGAACCAATTGTCCAATTATGCCTGGAAAAAATTGGACATACAAATTTCAGATGAAAGATCAGATTGGAAGTTTCTTCTATTTTCCTTCACTCTTTTTCCAGAAAGCTGCTGGAGGCTATGGTCCTATTCGAATCAACAACGTTGAGACTGTTCCTCTTCCATTTACGCGTCCTGATTATGAATATGATATACTAATTGGAGATTGGTATTTTGATGAGTATAAGGTATGTGTAAAGTCGTAACATAAGTATAAATGCTATAGATTATGAAAATGCACAATGTAGTTTAGTTGTAACCTTAATTGTTTTTGTGAAGGACTTGAGAATTTCTCTAGAAGATGGATGCAAAATGCCTTTTCCAGATGCCATTCTCATCAATGGTATGAGATCTGATCAAGCTACCTTTGAGTTTCAACCCGGTAAGTTTACGTTTGTATAGAGAATTACCAACAGTTGTAAGATCTGCGTACACTCTACTCTTCTCAGACCCCACCTAGTGAGATTTCACCGGGTATGTTGTTGTGGGACCGAGGTGTAGTTGTGCGATTTTTAAATCCTTTTGACATAAACAAAGCATTTTGTGTAGTCATAAAGGTACTAGCTCGTGTTCGTATCTTAGGTGGTTCTGAATCCCCTTGTTGAAAATCCTGATTCCGTCTAATGACATTTTGGTTTCTCTGTTTCGTCTTCAG-GGGCTACCTATAGATTGAGAATCTCGAACATAGGATTAAAAACAACCTTAAATTTCAAAATCCAGGATCATGAAATGCTTTTGGTGGAGACTGAAGGAGCCTACACTTCAAAAAAGTACCACCAAAGTCTAGACATCCATGTTGGTCAATCTTATTCTGTTCTTGTTACTGCAAAGAACCACAGCTATAATAGCTCGTATC</genome_strand>
        <mrna_strand>TTTACAATTTCTACTTTTGTTAGTGTCCATTCAAAACTACTTCACTTTGATTGGGTTGTTTCAATTTCCTCTAATGCACTCATTGGAGATCCTAAAGAG..............................................................................................................GTTATTATGATCAATAATCAGTTTCCAGGGCCCCTTTTGAACACAACAACAAATGATGTGGTCATTGTCAATGTTTATAACAACTTGACTGAACCTTTCCTCATGACATG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATGGAGTGCAATTAAGGAGGAATTCATGGCAAGATGGAGTTGAAGGAACCAATTGTCCAATTATGCCTGGAAAAAATTGGACATACAAATTTCAGATGAAAGATCAGATTGGAAGTTTCTTCTATTTTCCTTCACTCTTTTTCCAGAAAGCTGCTGGAGGCTATGGTCCTATTCGAATCAACAACGTTGAGACTGTTCCTCTTCCATTTACGCGTCCTGATTATGAATATGATATACTAATTGGAGATTGGTATTTTGATGAGTATAAG...........................................................................................GACTTGAGAATTTCTCTAGAAGATGGATGCAAAATGCCTTTTCCAGATGCCATTCTCATCAATGGTATGAGATCTGATCAAGCTACCTTTGAGTTTCAACCCG.................................................................................................................................................................................................................................................................................CGGGCTACCTATAGATTGAGAATCTCGCACATAGGATTAAAAACAACCTTAAATTTCAAAATCCAGGATCATGAAATGCTTTTGGTGGAGACTGNAGGAGCCTACACTTNCAAAAAGTACCACCAAAGTCTAGACATCCATGTTGGTCAATCTTATTCTGTTCTTGTTACTGCAAAGAA-CACAGCTATAATAGCTCGTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U318529" ref_strand="+" ref_description="SGN-U318529        Tomato 200607 #1 [16 ESTs aligned] arabidopsis/peptide: AT4G36040.1 | Symbol: None | DNAJ heat shock N-terminal domain-containing protein (J11), identical to dnaJ heat shock protein J11 (Arabidopsis thaliana) GI:9843641; contains Pfam profile PF00226 DnaJ domain | chr4:17049174-17050277 REVERSE | Aliases: T19K4.170, T19K4_170 (evalue: 2e-21, score=99.4) genbank/nr: gi|1684851|gb|AAB36543.1| DnaJ-like protein [Phaseolus vulgaris] (evalue: 1e-23, score=112)">
      <seq>aacattcactcacacgctattattttctccaataactaaccaaattcttctagaacaattattccaaatctatggcttcttcttcttttcttctctccacttcaattaccggctctaaactctccgccgctgcaccaccgcggagttctgttagcttcaagcagcggccgttctctgtttccgccgcgtactccactgcggagaggacttctactgctactactagtagctctacaatcgcctcacatacatcgttatacgaagttttagggattcaatttggagctaattctcatgaaattaagtctgcttaccggaaattagccagaattttgcatccggatgttcgtaattcgtcggcggaggactttataagagtccaatcagcgtatgctactctttccgatccggaaaaacgtgctaattatgatcggaacctatttggaaatagaattgcaaggcctgttggtttctcaccggcgggagctcgcagccattatactgttcgccgaggatgggaaaccgatcagtgttggtagaatttttcgaaatctcccgcccgattagtcacaaaatttagatgagcacgacttaatttctgatcgtaactcaaatctgaaatttcttataacgataataagatccgttatttgtacagtacatgtaaatgtgactttatgtatataatactttaaaattttgttatgttatttgggattaagataaaattagaatttacaatatacttacctttttttttttgtaaccacataaataatctttaatatttagtccaaatactattacgtacgtaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0096I08.1" temp_strand="+" temp_description="C04HBa0096I08.1  CU469513.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0096I08 sequenced_by:sanger upload_account_name:uk">
        <position start="30654" stop="32127"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="30954" g_stop="31680" g_length="727"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="727" r_length="727" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="31681" i_stop="31742" i_length="62">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.000" a_score="0.83"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="31743" g_stop="31827" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="728" r_stop="816" r_length="89" r_score="0.882"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0096I08.1" gen_strand="+" ref_id="SGN-U318529" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>812</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0096I08.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U318529" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="30954" e_stop="31680"/>
          <exon e_start="31743" e_stop="31827"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACATTCACTCACACGCTATTATTTTCTCCAATAACTAACCAAATTCTTCTAGAACAATTATTCCAAATCTATGGCTTCTTCTTCTTTTCTTCTCTCCACTTCAATTACCGGCTCTAAACTCTCCGCCGCTGCACCACCGCGGAGTTCTGTTAGCTTCAAGCAGCGGCCGTTCTCTGTTTCCGCCGCGTACTCCACTGCGGAGAGGACTTCTACTGCTACTACTAGTAGCTCTACAATCGCCTCACATACATCGTTATACGAAGTTTTAGGGATTCAATTTGGAGCTAATTCTCATGAAATTAAGTCTGCTTACCGGAAATTAGCCAGAATTTTGCATCCAGATGTTCGTAATTCGTCGGCGGAGGACTTTATAAGAGTCCAATCAGCGTATGCTACTCTTTCCGATCCGGAAAAACGTGCTAATTATGATCGGAACCTATTTGGAAATAGAATTGCAAGGCCTGTTGATTTCTCAACGGCGGGAGCTCGCAGCCATTATACTGTTCGCCGAGGATGGGAAACCGATCAGTGTTGGTAGAATTTTTCGAAATCTCCCGCCCGATTAGTCACAAAATTTAGATGAGCACCACTTAATTTCTGATCGTAACTCAAATCTGAAATTTCTTATAACGATAATAAGACCCGTTATTTGTACAGTACATGTAAATGTGACTTTATGTATATAATACTTTAAAAATTTGTTATGTGATTTGGGATTAAGATAAATAATCAGACTATGTTTTTGAAGTCTGAAAGTTCATCAAAATTGTTCACTCAACATTTGTATTATTAGAATTTACGATATACTTACC---TTTTTTTTATAACCACATAAATAATCTTTAATATTTAGT-CAAATACTATTACGTACGTAAT</genome_strand>
        <mrna_strand>AACATTCACTCACACGCTATTATTTTCTCCAATAACTAACCAAATTCTTCTAGAACAATTATTCCAAATCTATGGCTTCTTCTTCTTTTCTTCTCTCCACTTCAATTACCGGCTCTAAACTCTCCGCCGCTGCACCACCGCGGAGTTCTGTTAGCTTCAAGCAGCGGCCGTTCTCTGTTTCCGCCGCGTACTCCACTGCGGAGAGGACTTCTACTGCTACTACTAGTAGCTCTACAATCGCCTCACATACATCGTTATACGAAGTTTTAGGGATTCAATTTGGAGCTAATTCTCATGAAATTAAGTCTGCTTACCGGAAATTAGCCAGAATTTTGCATCCGGATGTTCGTAATTCGTCGGCGGAGGACTTTATAAGAGTCCAATCAGCGTATGCTACTCTTTCCGATCCGGAAAAACGTGCTAATTATGATCGGAACCTATTTGGAAATAGAATTGCAAGGCCTGTTGGTTTCTCACCGGCGGGAGCTCGCAGCCATTATACTGTTCGCCGAGGATGGGAAACCGATCAGTGTTGGTAGAATTTTTCGAAATCTCCCGCCCGATTAGTCACAAAATTTAGATGAGCACGACTTAATTTCTGATCGTAACTCAAATCTGAAATTTCTTATAACGATAATAAGATCCGTTATTTGTACAGTACATGTAAATGTGACTTTATGTATATAATACTTTAAAATTTTGTTATGTTATTTGGGATTAAGATAAA..............................................................ATTAGAATTTACAATATACTTACCTTTTTTTTTTTGTAACCACATAAATAATCTTTAATATTTAGTCCAAATACTATTACGTACGTAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U332800" ref_strand="+" ref_description="SGN-U332800        Tomato 200607 #1 [2 ESTs aligned] arabidopsis/peptide: | Symbol: None | expressed protein | chr4:12546979-12548968 FORWARD | Aliases: None(evalue: 2e-40, score=152) genbank/nr: gi|50922789|ref|XP_471755.1| OSJNBa0024J22.22 [Oryza sativa (japonica cultivar-group)] >gi|38347194|emb|CAD37109.2| OSJNBa0024J22.22 [Oryza sativa (japonica cultivar-group)] >gi|38567940|emb|CAE03985.3| OSJNBa0033H08.17 [Oryza sativa (japonica cultivar-group)] (evalue: 2e-39, score=160)">
      <seq>caaaaatggctaatgtaatgaagcctctgatgaattggccaaaatggcatcactatttatacgttcgcgcttcattcatccactttgttcaatctcaatctcaatctccactcttctcaacctgcaatgttcgccgactgccgtcgttcacggcatcaccttccggttaccggcaagctcattttcgttccggcgcggcacttaaatcacgtgaaagtccattaccgttagatcaatcagagggcgacagcgattccgatgaaaaaacaaggaagagtcgtaacgagaagaagcgtgaagctcgacgcgccgtccggtgggctatggatttagctaagttctctgctcctcaaattaagcgcattctcagagtggcttcaacggagcaagaggtatacgaagccgttatgctggccaagagactaggtcctgatgtacgagaaggaaagcgaaggcaattcagttacataggtagattattgcgagaagttaagcctgaattgatggatggtttaattcaggcaacaaaagatggagaccaaactaaatttcaggctttatctggttcggaactttcggctaccgaagatgttgatgaggaagttgaagagactgaatatgaggatgacgaagagagttctgaggacaatattgctttagccgatagatggtttgatggcttggtcaataaggacgttgacatctctaaagaatctattctctaagtgaggttgattttgatcgcccaggagtacgtggtcttgttaggaatgtacaatcaata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0096I08.1" temp_strand="+" temp_description="C04HBa0096I08.1  CU469513.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0096I08 sequenced_by:sanger upload_account_name:uk">
        <position start="33948" stop="38533"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34248" g_stop="34617" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="370" r_length="370" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="34618" i_stop="34685" i_length="68">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="34686" g_stop="34734" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="371" r_stop="419" r_length="49" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="34735" i_stop="34819" i_length="85">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="34820" g_stop="34871" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="420" r_stop="471" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="34872" i_stop="37200" i_length="2329">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.863" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="37201" g_stop="37364" g_length="164"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="635" r_length="164" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="37365" i_stop="37657" i_length="293">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.930" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="37658" g_stop="37771" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="636" r_stop="749" r_length="114" r_score="0.974"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="37772" i_stop="38197" i_length="426">
            <donor d_prob="0.967" d_score="0.94"/>
            <acceptor a_prob="0.994" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="38198" g_stop="38233" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="750" r_stop="784" r_length="35" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0096I08.1" gen_strand="+" ref_id="SGN-U332800" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>785</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0096I08.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U332800" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34248" e_stop="34617"/>
          <exon e_start="34686" e_stop="34734"/>
          <exon e_start="34820" e_stop="34871"/>
          <exon e_start="37201" e_stop="37364"/>
          <exon e_start="37658" e_stop="37771"/>
          <exon e_start="38198" e_stop="38233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAAATGGCTAATGTAATGAAGCCTCTGATGAATTGGCCAAAATGGCATCACTATTTATACGTTCGCGCTTCATTCATCCACTTTGTTCAATCTCAATCTCAATCTCCACTCTTCTCAACCTGCAATGTTCGCCGACTGCCGTCGTTCACGGCATCACCTTCCGGTTACCGGCAAGCTCATTTTCGTTCCGGCGCGGCACTTAAATCACGTGAAAGTCCATTACCGTTAGATCAATCAGAGGGCGACAGCGATTCCGATGAAAAAACAAGGAAGAGTCGTAACGAGAAGAAGCGTGAAGCTCGACGCGCCGTCCGGTGGGCTATGGATTTAGCTAAGTTCTCTGCTCCTCAAATTAAGCGCATTCTCAGGTAATTAGATAACTTTCTAGTTACAATTGACTAAATGATATAAGTTAATGTTTCATATTTCACTGTAGAGTGGCTTCAACGGAGCAAGAGGTATACGAAGCCGTTATGCTGGCCAAGGTAGTTTTATGTTCTATCAATTGTGAGGTATTATTGCTATTTTTTCGTTGTTAGTGAGTGTAACATGTTTGCTCATTTGCCGCAGAGACTAGGTCCTGATGTACGAGAAGGAAAGCGAAGGCAATTCAGTTACATAGGTATGCTTTAAGATGCTTACTTTCTCCATCAAAGTGATCTTTATATCCAAATGTTTTATAGCATCGTTCTGTATTCAGATAAGCAGAAGTTGTAAGTTATAGTACCTTTAATCTATTAGATATCTCAGTTGTATACTTATATCCAATGTAGGATTAATATAGTCAATATTGATTACTTGATAAGTAAAAAGGAACTCGCAAATTACTTAATTAGCATGGTAGTGAACTGTTTTAAAAGATGGCATATAATCAAGAGCATTTGGTAGGAAAGAAGGAGAATATATGGAGTATAAGGATTTAGGAAAGAAGTATAGTAATCTCAATTTGCTAAAATTGAAAAAGCAGATGAGTTAGTAGTATGCAGTGCCGTATTTGAAATTCATAAACTTAATGTTTTACCTTGATTCAAATCACATTACACTTTTATCCATTATTTTGAATTCATTTGAAACTACACTCTAAAACATGACATTTTAAATTTACAAGTATGGATCGCCTCTTTTTAGCAGATGTCTCTATCAAAATGGGTCTATTACTTTCCTCGACCCCTAAAGGACAAACATGTTGACATGAATCCGTATATGGTTGTAGTTTACTTACACCAACAACATCAAATTATTAGAGAAGAACAGTACCCTTGGAGTTGTATTCTTCCTTACTAGTTGGTGCTTATCCCGCATATATATATTCTACCTTAGTGTTGGTGCTTATCCCGCATATATATAGTCTACCTTAGTGCTGGTGCCATCTTCTTTTTTATTTATTTGTATAAAATGGCGGGGGGGGGGGGGTTTCGACATTGAGAGGGACTACACTGGGTATGATGATGTTGTAGGATTTTTAGTGCTGGGGCTACCTAAAACCGCTCTTCCAGTGATTTTGTGATGTTAGAAACAATTCATAAATTAACAACTCAAGAAGAGGGAAGCATTTTTTGTCAATCTATTGTCGGTCATATATAATCTAAATTTCTCTGTATTGTTCAACCTCTGATCTTGTAAACATCTTAGTTTTCTTTGCCTCACTGGAACAACTATGGGATCTATGGTTCTTTCCGTCTGATAAATTCAGTAACTGATTTATCATAAGCTTTCTCTAGTCATCAATTTTACGCTATAAAAACAAATACTTGTGTTACACAAAAAAATAACAACAATTGGTGAAAGAAGTTTATGTCGCATAGAATCTTCTTGTAGTTCATATATTTTGCATCCACAAAAGCAAATAATTTATGAGATGTAATAGTAGGCTTTTAGGGGATTGATGCAAAAAGATAGAACTGAGCAGTAGGAATGCTTGTGAAACTGCCTTCAGATCTGATGCATAACGTTTGGTAATTTATCGAGTTCCTTTTGCAAAGTTTTTCATTCTCACCATTTGTCATCGGAGTGGCTTCTGTGACAGATTCAATGGAAAGGGCTCAAAGGAAATTTGATCTCTTTGGTGCAGAATGGAATGGATAAACAAATTTGTGAGTTGAGGTTGATGATCCCAAAACGTTATTGGGATAGCAAAAATAGAAAATTAGTGAATGGTAATAGAGTTCTAATTTGAATCCTTCTAATTTCCTTATCTCATACTTTTTAGGAGGTTCATGCAAATGGAGGGTAAACACTGAATAGTAATACTGCAGCGCTGTCAATTGAAAGAAGAGGAATCAACTTGATATTATTCTTGAACAGAAGCACACTAATAATAAATTTATTCTTTTGAGAAGGGTCATTCTAGTGAAAAAGGTGTTGGTGTGTCACTTAATGTTTGACCTATATATGCTATCTCTTATTAGAAGATCCAGCAAATTATATACAGCTGTTTGAGTACATACATGTTAATAACAGAGGAAGCAATCTGAAAATTAGATATCCCTTGTGAATGCATTATCCACTTCCTGCCTTTTCATTTCTTGTTCCAGGCCACAGTGAATATGCTTGTCATGTCTTTTGTTCCATTTTCTCTAGAACTGTGCTTTGTATAATTGATTTGTGAACTGTTCATTCCCATGACTGAAAAAATCATGATGTTCGGTATGAGTTGTGGTTTATTAATTGATTGATCCCTCATAGTAATTGTGATGCATCATATTACTAAAGTTCTATTAATGTTGTTATTTATCTACATTTTGATAAGAGATTGTTTACATTGATGGTTTGAATTCTAAAATCTATGCACTCATAAACCATGGAATTTTTCTGCTGAATATTTTGGGAGTAAGTTAACCTTGGAAATGTTTGCAGTGTTATAATTTCAGTTTCTTGTCTTGAAATTTGATCACATGAAATTAATGTATGTTGGATCTATATGCTCACGATGTAATATGAATTCATGTTAGGTAGATTATTGCGAGAAGTTAAGCCTGAATTGATGGATGGTTTAATTCAGGCAACAAAAGATGGAGACCAAACTAAATTTCAGGCTTTATCTGGTTCGGAACTTTCGGCTACCGAAGATGTTGATGAGGAAGTTGAAGAGACTGAATATGAGGATGACGAAGAGGTATGTCATAATCTCACTCCTCATTTTGGGGATCAAATTTCTTTGGCTGCTTTACTGTGTTTAAAGTTATGACTGAGCACAAGAAACTACAATCGCGAATCTATTTCCATGAAAAATGAACAAGTATGAGAACAACTGTTCTGCTCGTCTGTTTAATAAAAGAGCTGATTACGAAACCTGCATAATGTGGGTTAGATAACATAACAGGACAACAATTTAAATTTTACTTGGGAACTAATTTCAGGACTGCAATTGAAAGTTTGAAGTTCTCTTTTTCTTGTGCTTATTTTCAGAGTTCTGAGGACAATATTGCTTTAGCCGATAGATGGTTTGATGGCTTGGTCAATAAGGACGTTGACATCTCTAAAGAAATCTATTCTCTAAGTGAGGTTGATTTTGATCG-CCAGGTTAGTTCAGATGTTATACGCAGGTCTGGAATTATCTTCTTTTTTGGATTTTCTGGTGTATAAGTTGAATTGACACATAATTTTATGATTTTCATGCTCAATCTCTTCTTGTATATGTTCATTTCAAAAGACAAATAATCGGTAAAGGAAAACTAGTAATGAAGAATTAATATGGACAGATCAGTATTTCAGGCTGTCAAATGTGCACCCTGACCTTAAATGACATAGTTGTTAGCTTAGTTAACTGCGCGTTTCATTACAATTAGCTTAAAGGTGTCAACAATTTACTTGTGCTGTTTTTATGGAATAAGCTGCCCGTACTTGAGATATTAAAGAAAAATTATGTGTCTTTTGTATGTAAATTATAATTTGCTTGTCTTGCCATGGTATAATATTTATCTGATTATGTTCTATCTCGTTGTACAGGAGTTACGTGGTCTTGTTAGGAATGTACAATCAATA</genome_strand>
        <mrna_strand>CAAAAATGGCTAATGTAATGAAGCCTCTGATGAATTGGCCAAAATGGCATCACTATTTATACGTTCGCGCTTCATTCATCCACTTTGTTCAATCTCAATCTCAATCTCCACTCTTCTCAACCTGCAATGTTCGCCGACTGCCGTCGTTCACGGCATCACCTTCCGGTTACCGGCAAGCTCATTTTCGTTCCGGCGCGGCACTTAAATCACGTGAAAGTCCATTACCGTTAGATCAATCAGAGGGCGACAGCGATTCCGATGAAAAAACAAGGAAGAGTCGTAACGAGAAGAAGCGTGAAGCTCGACGCGCCGTCCGGTGGGCTATGGATTTAGCTAAGTTCTCTGCTCCTCAAATTAAGCGCATTCTCAG....................................................................AGTGGCTTCAACGGAGCAAGAGGTATACGAAGCCGTTATGCTGGCCAAG.....................................................................................AGACTAGGTCCTGATGTACGAGAAGGAAAGCGAAGGCAATTCAGTTACATAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGATTATTGCGAGAAGTTAAGCCTGAATTGATGGATGGTTTAATTCAGGCAACAAAAGATGGAGACCAAACTAAATTTCAGGCTTTATCTGGTTCGGAACTTTCGGCTACCGAAGATGTTGATGAGGAAGTTGAAGAGACTGAATATGAGGATGACGAAGAG.....................................................................................................................................................................................................................................................................................................AGTTCTGAGGACAATATTGCTTTAGCCGATAGATGGTTTGATGGCTTGGTCAATAAGGACGTTGACATCTCTAAAG-AATCTATTCTCTAAGTGAGGTTGATTTTGATCGCCCAG..........................................................................................................................................................................................................................................................................................................................................................................................................................................GAG-TACGTGGTCTTGTTAGGAATGTACAATCAATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_U_tomato" ref_id="SGN-U333078" ref_strand="+" ref_description="SGN-U333078        Tomato 200607 #1 [2 ESTs aligned]">
      <seq>ggcaccagattctttctactgtagatcaacatccactgttcaatgccataagccatgaacttttgagtgaaacactagtactggagttgtgatgttaaaaacattgaaaattttgcataatgtttgcttgatagatgacattgggattgaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0096I08-RwzkG/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C04HBa0096I08.1" temp_strand="+" temp_description="C04HBa0096I08.1  CU469513.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0096I08 sequenced_by:sanger upload_account_name:uk">
        <position start="38280" stop="39026"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38574" g_stop="38726" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="152" r_length="152" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="153" polyA_stop="165"/>
      <MATCH_line gen_id="C04HBa0096I08.1" gen_strand="+" ref_id="SGN-U333078" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>153</cumulative_length_of_scored_exons>
        <coverage percentage="0.927" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0096I08.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U333078" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38574" e_stop="38726"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAGAGAGTATTCTTTCTACTGTAGATCAACATCCACTGTTCAATGCCATAAGCCATGAACTTTTGAGTGAAACACTAGTACTGGAGTTGTGATGTTAAAAACATTGAAAATTTTGCATAATGTTTGCTTGATAGATGACATTGGGATTGAGA</genome_strand>
        <mrna_strand>GGCACCAG-ATTCTTTCTACTGTAGATCAACATCCACTGTTCAATGCCATAAGCCATGAACTTTTGAGTGAAACACTAGTACTGGAGTTGTGATGTTAAAAACATTGAAAATTTTGCATAATGTTTGCTTGATAGATGACATTGGGATTGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>6</total_number_ESTs_reported>
    </alignment_module>
  <PGL_module xmlns="http://www.genomethreader.org/GTH_output/PGL_module/">
    <predicted_gene_location>
      <PGL_line PGL_serial="1" PGL_strand="-" PGL_start="6330" PGL_stop="2535"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="6330" e_stop="6138"/>
            <exon e_start="6044" e_stop="5957"/>
            <exon e_start="5834" e_stop="5648"/>
            <exon e_start="5550" e_stop="5460"/>
            <exon e_start="3947" e_stop="3912"/>
            <exon e_start="3784" e_stop="3686"/>
            <exon e_start="2980" e_stop="2850"/>
            <exon e_start="2699" e_stop="2651"/>
            <exon e_start="2564" e_stop="2535"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.992" acc_prob="0.549" e_score="0.995"/>
          <exon-intron don_prob="0.923" acc_prob="0.992" e_score="1.000"/>
          <exon-intron don_prob="0.803" acc_prob="0.961" e_score="1.000"/>
          <exon-intron don_prob="0.985" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.988" acc_prob="0.765" e_score="1.000"/>
          <exon-intron don_prob="0.981" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.307" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.995">
            <gDNA_exon_boundary e_start="6330" e_stop="6138" e_length="193"/>
          </exon>
          <intron i_serial="1" don_prob="0.992" acc_prob="0.549">
            <gDNA_intron_boundary i_start="6137" i_stop="6045" i_length="93"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="6044" e_stop="5957" e_length="88"/>
          </exon>
          <intron i_serial="2" don_prob="0.923" acc_prob="0.992">
            <gDNA_intron_boundary i_start="5956" i_stop="5835" i_length="122"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="5834" e_stop="5648" e_length="187"/>
          </exon>
          <intron i_serial="3" don_prob="0.803" acc_prob="0.961">
            <gDNA_intron_boundary i_start="5647" i_stop="5551" i_length="97"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="5550" e_stop="5460" e_length="91"/>
          </exon>
          <intron i_serial="4" don_prob="0.985" acc_prob="0.997">
            <gDNA_intron_boundary i_start="5459" i_stop="3948" i_length="1512"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="3947" e_stop="3912" e_length="36"/>
          </exon>
          <intron i_serial="5" don_prob="0.988" acc_prob="0.765">
            <gDNA_intron_boundary i_start="3911" i_stop="3785" i_length="127"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="3784" e_stop="3686" e_length="99"/>
          </exon>
          <intron i_serial="6" don_prob="0.981" acc_prob="0.999">
            <gDNA_intron_boundary i_start="3685" i_stop="2981" i_length="705"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="2980" e_stop="2850" e_length="131"/>
          </exon>
          <intron i_serial="7" don_prob="0.307" acc_prob="1.000">
            <gDNA_intron_boundary i_start="2849" i_stop="2700" i_length="150"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="2699" e_stop="2651" e_length="49"/>
          </exon>
          <intron i_serial="8" don_prob="0.995" acc_prob="0.999">
            <gDNA_intron_boundary i_start="2650" i_stop="2565" i_length="86"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="2564" e_stop="2535" e_length="30"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6330" stop="6138"/>
              <exon start="6044" stop="5957"/>
              <exon start="5834" stop="5648"/>
              <exon start="5550" stop="5460"/>
              <exon start="3947" stop="3912"/>
              <exon start="3784" stop="3686"/>
              <exon start="2980" stop="2850"/>
              <exon start="2699" stop="2651"/>
              <exon start="2564" stop="2535"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U344314" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CGAATTATCAGACGGAGCCCGTATCCATCCGTATCGTTGCCGGATTAAAAAAAGCACCGATTGAACTCCGACGGCTGTTAAAGCAATCTGTGTGAAATTCCGACGATTCTCCGCCATGGCGATCGACGCAGTCCCTCCACTCATCGCTGCACAGCTGAATTACATAGTCACTCACGCTCCATTCTCTGTTAAG : GTAGAAAATATGTGTTCAGGATGCAAAAACACTGGTTTGCTTGATCGGTTCTCGTTAGTAATCCCCTTCTGTCTTGATTTCATCAAAT : GGGATGTGATGTACAATGCTGTGTATCCATTAGCAGCACCAGATGTTATATTTGGGTCGGAAGATGAAACTTTTCGACCTTATCATGCTGTCAGTGATGCTAGTGACTCAAAGTCATTGAAGAACCCTCTTACTGACTGGAATAATAGAGATCCGACTAGTCTTTTCACTCTGGTTCTGCAGCTGAG : GGAGTTGTACAAGGCGTACCAAAAGAAAAGAGTTGAACAAGTTGATGATGACAGGTTGAAGTTTGAAATCAGCACAATGCTTTCCAGAGAG : GGGATTGAAATGTCTTTGAGTTCAAATATTGATAAG : CCAGAAGAGGTTAAATTTGCTGTCCCACTGCTGGATTTGGATTTAAACAAAATGGTTGCAGGATCCACTTGGCGCCATCCACAGAAGATATACCTACAG : GTTATATATCCAGTTGGCAGGAAATACTCCAGTGCTCCTTCTGCCCCACGTTTGAAATTGGTATCTTCTCCTGAATTGAAGGCTGTCTTCTCAATTGATGATTTCAGGCTTCCTCCATGGTTGGATGGAAT : GTGTATGGCTGAGTACCTTCCGACATTAGAAGAGATGCTTGAATCACAG : ATTAAAGATGCAGTTGCATCCATTGAAAGT</gDNA_template>
            <first_frame> R  I  I  R  R  S  P  Y  P  S  V  S  L  P  D  *  K  K  H  R  L  N  S  D  G  C  *  S  N  L  C  E  I  P  T  I  L  R  H  G  D  R  R  S  P  S  T  H  R  C  T  A  E  L  H  S  H  S  R  S  I  L  C  *   : G  R  K  Y  V  F  R  M  Q  K  H  W  F  A  *  S  V  L  V  S  N  P  L  L  S  *  F  H  Q  M :   G  C  D  V  Q  C  C  V  S  I  S  S  T  R  C  Y  I  W  V  G  R  *  N  F  S  T  L  S  C  C  Q  *  C  *  *  L  K  V  I  E  E  P  S  Y  *  L  E  *  *  R  S  D  *  S  F  H  S  G  S  A  A  E  :  G  V  V  Q  G  V  P  K  E  K  S  *  T  S  *  *  *  Q  V  E  V  *  N  Q  H  N  A  F  Q  R   : G  D  *  N  V  F  E  F  K  Y  *  *   : A  R  R  G  *  I  C  C  P  T  A  G  F  G  F  K  Q  N  G  C  R  I  H  L  A  P  S  T  E  D  I  P  T   : G  Y  I  S  S  W  Q  E  I  L  Q  C  S  F  C  P  T  F  E  I  G  I  F  S  *  I  E  G  C  L  L  N  *  *  F  Q  A  S  S  M  V  G  W  N  :  V  Y  G  *  V  P  S  D  I  R  R  D  A  *  I  T   : D  *  R  C  S  C  I  H  *  K  </first_frame>
            <second_frame>  E  L  S  D  G  A  R  I  H  P  Y  R  C  R  I  K  K  S  T  D  *  T  P  T  A  V  K  A  I  C  V  K  F  R  R  F  S  A  M  A  I  D  A  V  P  P  L  I  A  A  Q  L  N  Y  I  V  T  H  A  P  F  S  V  K  :  V  E  N  M  C  S  G  C  K  N  T  G  L  L  D  R  F  S  L  V  I  P  F  C  L  D  F  I  K   : W  D  V  M  Y  N  A  V  Y  P  L  A  A  P  D  V  I  F  G  S  E  D  E  T  F  R  P  Y  H  A  V  S  D  A  S  D  S  K  S  L  K  N  P  L  T  D  W  N  N  R  D  P  T  S  L  F  T  L  V  L  Q  L  R :   E  L  Y  K  A  Y  Q  K  K  R  V  E  Q  V  D  D  D  R  L  K  F  E  I  S  T  M  L  S  R  E  :  G  I  E  M  S  L  S  S  N  I  D  K  :  P  E  E  V  K  F  A  V  P  L  L  D  L  D  L  N  K  M  V  A  G  S  T  W  R  H  P  Q  K  I  Y  L  Q  :  V  I  Y  P  V  G  R  K  Y  S  S  A  P  S  A  P  R  L  K  L  V  S  S  P  E  L  K  A  V  F  S  I  D  D  F  R  L  P  P  W  L  D  G  M :   C  M  A  E  Y  L  P  T  L  E  E  M  L  E  S  Q  :  I  K  D  A  V  A  S  I  E  S </second_frame>
            <third_frame>   N  Y  Q  T  E  P  V  S  I  R  I  V  A  G  L  K  K  A  P  I  E  L  R  R  L  L  K  Q  S  V  *  N  S  D  D  S  P  P  W  R  S  T  Q  S  L  H  S  S  L  H  S  *  I  T  *  S  L  T  L  H  S  L  L  R :   *  K  I  C  V  Q  D  A  K  T  L  V  C  L  I  G  S  R  *  *  S  P  S  V  L  I  S  S  N  :  G  M  *  C  T  M  L  C  I  H  *  Q  H  Q  M  L  Y  L  G  R  K  M  K  L  F  D  L  I  M  L  S  V  M  L  V  T  Q  S  H  *  R  T  L  L  L  T  G  I  I  E  I  R  L  V  F  S  L  W  F  C  S  *   : G  S  C  T  R  R  T  K  R  K  E  L  N  K  L  M  M  T  G  *  S  L  K  S  A  Q  C  F  P  E  R :   G  L  K  C  L  *  V  Q  I  L  I  S :   Q  K  R  L  N  L  L  S  H  C  W  I  W  I  *  T  K  W  L  Q  D  P  L  G  A  I  H  R  R  Y  T  Y  R :   L  Y  I  Q  L  A  G  N  T  P  V  L  L  L  P  H  V  *  N  W  Y  L  L  L  N  *  R  L  S  S  Q  L  M  I  S  G  F  L  H  G  W  M  E   : C  V  W  L  S  T  F  R  H  *  K  R  C  L  N  H  R :   L  K  M  Q  L  H  P  L  K   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0096I08.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="6266" stop="6138"/>
                    <exon start="6044" stop="5957"/>
                    <exon start="5834" stop="5648"/>
                    <exon start="5550" stop="5460"/>
                    <exon start="3947" stop="3912"/>
                    <exon start="3784" stop="3686"/>
                    <exon start="2980" stop="2850"/>
                    <exon start="2699" stop="2651"/>
                    <exon start="2564" stop="2535"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>840</number_coding_nucleotides>
                  <number_encoded_amino_acids>280</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TPTAVKAICVKFRRFSAMAIDAVPPLIAAQLNYIVTHAPFSVKVENMCSGCKNTGLLDRFSLVIPFCLDFIKWDVMYNAVYPLAAPDVIFGSEDETFRPYHAVSDASDSKSLKNPLTDWNNRDPTSLFTLVLQLRELYKAYQKKRVEQVDDDRLKFEISTMLSREGIEMSLSSNIDKPEEVKFAVPLLDLDLNKMVAGSTWRHPQKIYLQVIYPVGRKYSSAPSAPRLKLVSSPELKAVFSIDDFRLPPWLDGMCMAEYLPTLEEMLESQIKDAVASIES</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="20444" PGL_stop="23135"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="20444" e_stop="20511"/>
            <exon e_start="21315" e_stop="21418"/>
            <exon e_start="21512" e_stop="21628"/>
            <exon e_start="21765" e_stop="21841"/>
            <exon e_start="21957" e_stop="22001"/>
            <exon e_start="22459" e_stop="23135"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.890" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.399" acc_prob="0.969" e_score="1.000"/>
          <exon-intron don_prob="0.972" acc_prob="0.999" e_score="0.991"/>
          <exon-intron don_prob="0.106" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.962" acc_prob="0.972" e_score="1.000"/>
          <exon-only e_score="0.997"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="20444" e_stop="20511" e_length="68"/>
          </exon>
          <intron i_serial="1" don_prob="0.890" acc_prob="0.999">
            <gDNA_intron_boundary i_start="20512" i_stop="21314" i_length="803"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="21315" e_stop="21418" e_length="104"/>
          </exon>
          <intron i_serial="2" don_prob="0.399" acc_prob="0.969">
            <gDNA_intron_boundary i_start="21419" i_stop="21511" i_length="93"/>
          </intron>
          <exon e_serial="3" e_score="0.991">
            <gDNA_exon_boundary e_start="21512" e_stop="21628" e_length="117"/>
          </exon>
          <intron i_serial="3" don_prob="0.972" acc_prob="0.999">
            <gDNA_intron_boundary i_start="21629" i_stop="21764" i_length="136"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="21765" e_stop="21841" e_length="77"/>
          </exon>
          <intron i_serial="4" don_prob="0.106" acc_prob="0.990">
            <gDNA_intron_boundary i_start="21842" i_stop="21956" i_length="115"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="21957" e_stop="22001" e_length="45"/>
          </exon>
          <intron i_serial="5" don_prob="0.962" acc_prob="0.972">
            <gDNA_intron_boundary i_start="22002" i_stop="22458" i_length="457"/>
          </intron>
          <exon e_serial="6" e_score="0.997">
            <gDNA_exon_boundary e_start="22459" e_stop="23135" e_length="677"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="20444" stop="20511"/>
              <exon start="21315" stop="21418"/>
              <exon start="21512" stop="21628"/>
              <exon start="21765" stop="21841"/>
              <exon start="21957" stop="22001"/>
              <exon start="22459" stop="23135"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U322035" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TGTGGAGAAGCTTGTTGACATTGTTACGTATATACATCAAGCAATTGTGGAAGCATTTGGGGACAACG : GATTGACATCTGCTGTCAAGGAGCCTGTGAAGAAACAAGAAAGATTGGGAGTAGCTGGTCTGGCTTTACACTATGCTAACTTAGTTACTCAAATTGATAACATT : GCTTCACGGCCCACCGCTCTTCCCCCTAACATGAGGGATGGATTATATAATGGATTGCCTCCTTCCATAAAAACGGCCCTTCGTTCACGTCTGCAGGCGGTTGATGCAAAGGAAGAG : CTCACAATTCCGCAGATTAAAGCAGAAATGGAAAAAACTCTTCACTGGCTTGTCCCAGTCGCTGCAGATACTACGAA : AGCACACCAAGGCTTTGGATGGGTTGGAGAGTGGGCCAACACCGG : AAGCGAGTTTGGCAAGAAGAACCCTCCACAAGTTTCCCTCATTCGACTGCAGACACTCTACCATGCTGACAAACAGAAAATGGACTACCATGTCCTTGAACTAGTGACATGGCTTCACCGTTTGATCAGCCTGGTAAGATATAATGGGCCCAAGGCTTTTCCAGGACGATCACCAACACGCAAAGGACTTAATCTGCAGACTGAGTTGATGATGAACACCAACTCAAAAACACCTAAGATTCAGATTTCTCTCGAAGATAGGACTTTACTAGAGAAAGTGATGAAACAGAAATGTTTGGTTCCTGGAAGAAGCAAGAGTCAGGAGTTTCTGTTGCCCAAGAATCGGCAAAAGGTGTGGGCGCTAAGTAGAAGCATGGGTAACTCCCCTCGTACCGACTTTCAACATCCAAAGGCTACTGTTTTGGATATATTAGATGGCTTACATTAGCATTTTGAGTTGCTAAAGAGAGATCTCAAGCAAAAAAAAGGTTCATTTTTTTGTTTTCTTGATTCTTAGCTCCCTCCTCCTATGGAACTAAAGCCTCTTTGTATATAGTCTCTCCATCATATGGTGATTGGGAAAAATGTTATACTGTAGCATATTATTATCGCCAAAATACATTTAGATTCTAGTGGAATTGAATGTTCATGGATGACAGGGAATGATGTTTATTTGG</gDNA_template>
            <first_frame> C  G  E  A  C  *  H  C  Y  V  Y  T  S  S  N  C  G  S  I  W  G  Q  R :   I  D  I  C  C  Q  G  A  C  E  E  T  R  K  I  G  S  S  W  S  G  F  T  L  C  *  L  S  Y  S  N  *  *  H   : C  F  T  A  H  R  S  S  P  *  H  E  G  W  I  I  *  W  I  A  S  F  H  K  N  G  P  S  F  T  S  A  G  G  *  C  K  G  R   : A  H  N  S  A  D  *  S  R  N  G  K  N  S  S  L  A  C  P  S  R  C  R  Y  Y  E  :  S  T  P  R  L  W  M  G  W  R  V  G  Q  H  R  :  K  R  V  W  Q  E  E  P  S  T  S  F  P  H  S  T  A  D  T  L  P  C  *  Q  T  E  N  G  L  P  C  P  *  T  S  D  M  A  S  P  F  D  Q  P  G  K  I  *  W  A  Q  G  F  S  R  T  I  T  N  T  Q  R  T  *  S  A  D  *  V  D  D  E  H  Q  L  K  N  T  *  D  S  D  F  S  R  R  *  D  F  T  R  E  S  D  E  T  E  M  F  G  S  W  K  K  Q  E  S  G  V  S  V  A  Q  E  S  A  K  G  V  G  A  K  *  K  H  G  *  L  P  S  Y  R  L  S  T  S  K  G  Y  C  F  G  Y  I  R  W  L  T  L  A  F  *  V  A  K  E  R  S  Q  A  K  K  R  F  I  F  L  F  S  *  F  L  A  P  S  S  Y  G  T  K  A  S  L  Y  I  V  S  P  S  Y  G  D  W  E  K  C  Y  T  V  A  Y  Y  Y  R  Q  N  T  F  R  F  *  W  N  *  M  F  M  D  D  R  E  *  C  L  F   </first_frame>
            <second_frame>  V  E  K  L  V  D  I  V  T  Y  I  H  Q  A  I  V  E  A  F  G  D  N   : G  L  T  S  A  V  K  E  P  V  K  K  Q  E  R  L  G  V  A  G  L  A  L  H  Y  A  N  L  V  T  Q  I  D  N  I  :  A  S  R  P  T  A  L  P  P  N  M  R  D  G  L  Y  N  G  L  P  P  S  I  K  T  A  L  R  S  R  L  Q  A  V  D  A  K  E  E  :  L  T  I  P  Q  I  K  A  E  M  E  K  T  L  H  W  L  V  P  V  A  A  D  T  T  K :   A  H  Q  G  F  G  W  V  G  E  W  A  N  T  G :   S  E  F  G  K  K  N  P  P  Q  V  S  L  I  R  L  Q  T  L  Y  H  A  D  K  Q  K  M  D  Y  H  V  L  E  L  V  T  W  L  H  R  L  I  S  L  V  R  Y  N  G  P  K  A  F  P  G  R  S  P  T  R  K  G  L  N  L  Q  T  E  L  M  M  N  T  N  S  K  T  P  K  I  Q  I  S  L  E  D  R  T  L  L  E  K  V  M  K  Q  K  C  L  V  P  G  R  S  K  S  Q  E  F  L  L  P  K  N  R  Q  K  V  W  A  L  S  R  S  M  G  N  S  P  R  T  D  F  Q  H  P  K  A  T  V  L  D  I  L  D  G  L  H  *  H  F  E  L  L  K  R  D  L  K  Q  K  K  G  S  F  F  C  F  L  D  S  *  L  P  P  P  M  E  L  K  P  L  C  I  *  S  L  H  H  M  V  I  G  K  N  V  I  L  *  H  I  I  I  A  K  I  H  L  D  S  S  G  I  E  C  S  W  M  T  G  N  D  V  Y  L  </second_frame>
            <third_frame>   W  R  S  L  L  T  L  L  R  I  Y  I  K  Q  L  W  K  H  L  G  T  T  :  D  *  H  L  L  S  R  S  L  *  R  N  K  K  D  W  E  *  L  V  W  L  Y  T  M  L  T  *  L  L  K  L  I  T  L :   L  H  G  P  P  L  F  P  L  T  *  G  M  D  Y  I  M  D  C  L  L  P  *  K  R  P  F  V  H  V  C  R  R  L  M  Q  R  K  S :   S  Q  F  R  R  L  K  Q  K  W  K  K  L  F  T  G  L  S  Q  S  L  Q  I  L  R   : K  H  T  K  A  L  D  G  L  E  S  G  P  T  P   : E  A  S  L  A  R  R  T  L  H  K  F  P  S  F  D  C  R  H  S  T  M  L  T  N  R  K  W  T  T  M  S  L  N  *  *  H  G  F  T  V  *  S  A  W  *  D  I  M  G  P  R  L  F  Q  D  D  H  Q  H  A  K  D  L  I  C  R  L  S  *  *  *  T  P  T  Q  K  H  L  R  F  R  F  L  S  K  I  G  L  Y  *  R  K  *  *  N  R  N  V  W  F  L  E  E  A  R  V  R  S  F  C  C  P  R  I  G  K  R  C  G  R  *  V  E  A  W  V  T  P  L  V  P  T  F  N  I  Q  R  L  L  F  W  I  Y  *  M  A  Y  I  S  I  L  S  C  *  R  E  I  S  S  K  K  K  V  H  F  F  V  F  L  I  L  S  S  L  L  L  W  N  *  S  L  F  V  Y  S  L  S  I  I  W  *  L  G  K  M  L  Y  C  S  I  L  L  S  P  K  Y  I  *  I  L  V  E  L  N  V  H  G  *  Q  G  M  M  F  I  W </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0096I08.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="20445" stop="20511"/>
                    <exon start="21315" stop="21418"/>
                    <exon start="21512" stop="21628"/>
                    <exon start="21765" stop="21841"/>
                    <exon start="21957" stop="22001"/>
                    <exon start="22459" stop="22906"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>855</number_coding_nucleotides>
                  <number_encoded_amino_acids>285</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VEKLVDIVTYIHQAIVEAFGDNGLTSAVKEPVKKQERLGVAGLALHYANLVTQIDNIASRPTALPPNMRDGLYNGLPPSIKTALRSRLQAVDAKEELTIPQIKAEMEKTLHWLVPVAADTTKAHQGFGWVGEWANTGSEFGKKNPPQVSLIRLQTLYHADKQKMDYHVLELVTWLHRLISLVRYNGPKAFPGRSPTRKGLNLQTELMMNTNSKTPKIQISLEDRTLLEKVMKQKCLVPGRSKSQEFLLPKNRQKVWALSRSMGNSPRTDFQHPKATVLDILDGLH*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="23857" PGL_stop="25555"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="23857" e_stop="23955"/>
            <exon e_start="24066" e_stop="24175"/>
            <exon e_start="24617" e_stop="24887"/>
            <exon e_start="24979" e_stop="25081"/>
            <exon e_start="25355" e_stop="25555"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.977" acc_prob="0.865" e_score="1.000"/>
          <exon-intron don_prob="0.501" acc_prob="0.985" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.984" e_score="1.000"/>
          <exon-only e_score="0.965"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="23857" e_stop="23955" e_length="99"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="1.000">
            <gDNA_intron_boundary i_start="23956" i_stop="24065" i_length="110"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="24066" e_stop="24175" e_length="110"/>
          </exon>
          <intron i_serial="2" don_prob="0.977" acc_prob="0.865">
            <gDNA_intron_boundary i_start="24176" i_stop="24616" i_length="441"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="24617" e_stop="24887" e_length="271"/>
          </exon>
          <intron i_serial="3" don_prob="0.501" acc_prob="0.985">
            <gDNA_intron_boundary i_start="24888" i_stop="24978" i_length="91"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="24979" e_stop="25081" e_length="103"/>
          </exon>
          <intron i_serial="4" don_prob="0.997" acc_prob="0.984">
            <gDNA_intron_boundary i_start="25082" i_stop="25354" i_length="273"/>
          </intron>
          <exon e_serial="5" e_score="0.965">
            <gDNA_exon_boundary e_start="25355" e_stop="25555" e_length="201"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23857" stop="23955"/>
              <exon start="24066" stop="24175"/>
              <exon start="24617" stop="24887"/>
              <exon start="24979" stop="25081"/>
              <exon start="25355" stop="25555"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U332923" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTTACAATTTCTACTTTTGTTAGTGTCCATTCAAAACTACTTCACTTTGATTGGGTTGTTTCAATTTCCTCTAATGCACTCATTGGAGATCCTAAAGAG : GTTATTATGATCAATAATCAGTTTCCAGGGCCCCTTTTGAACACAACAACAAATGATGTGGTCATTGTCAATGTTTATAACAACTTGACTGAACCTTTCCTCATGACATG : GAATGGAGTGCAATTAAGGAGGAATTCATGGCAAGATGGAGTTGAAGGAACCAATTGTCCAATTATGCCTGGAAAAAATTGGACATACAAATTTCAGATGAAAGATCAGATTGGAAGTTTCTTCTATTTTCCTTCACTCTTTTTCCAGAAAGCTGCTGGAGGCTATGGTCCTATTCGAATCAACAACGTTGAGACTGTTCCTCTTCCATTTACGCGTCCTGATTATGAATATGATATACTAATTGGAGATTGGTATTTTGATGAGTATAAG : GACTTGAGAATTTCTCTAGAAGATGGATGCAAAATGCCTTTTCCAGATGCCATTCTCATCAATGGTATGAGATCTGATCAAGCTACCTTTGAGTTTCAACCCG : GGGCTACCTATAGATTGAGAATCTCGAACATAGGATTAAAAACAACCTTAAATTTCAAAATCCAGGATCATGAAATGCTTTTGGTGGAGACTGAAGGAGCCTACACTTCAAAAAAGTACCACCAAAGTCTAGACATCCATGTTGGTCAATCTTATTCTGTTCTTGTTACTGCAAAGAACCACAGCTATAATAGCTCGTATC</gDNA_template>
            <first_frame> F  T  I  S  T  F  V  S  V  H  S  K  L  L  H  F  D  W  V  V  S  I  S  S  N  A  L  I  G  D  P  K  E  :  V  I  M  I  N  N  Q  F  P  G  P  L  L  N  T  T  T  N  D  V  V  I  V  N  V  Y  N  N  L  T  E  P  F  L  M  T  W :   N  G  V  Q  L  R  R  N  S  W  Q  D  G  V  E  G  T  N  C  P  I  M  P  G  K  N  W  T  Y  K  F  Q  M  K  D  Q  I  G  S  F  F  Y  F  P  S  L  F  F  Q  K  A  A  G  G  Y  G  P  I  R  I  N  N  V  E  T  V  P  L  P  F  T  R  P  D  Y  E  Y  D  I  L  I  G  D  W  Y  F  D  E  Y  K  :  D  L  R  I  S  L  E  D  G  C  K  M  P  F  P  D  A  I  L  I  N  G  M  R  S  D  Q  A  T  F  E  F  Q  P   : G  A  T  Y  R  L  R  I  S  N  I  G  L  K  T  T  L  N  F  K  I  Q  D  H  E  M  L  L  V  E  T  E  G  A  Y  T  S  K  K  Y  H  Q  S  L  D  I  H  V  G  Q  S  Y  S  V  L  V  T  A  K  N  H  S  Y  N  S  S  Y  </first_frame>
            <second_frame>  L  Q  F  L  L  L  L  V  S  I  Q  N  Y  F  T  L  I  G  L  F  Q  F  P  L  M  H  S  L  E  I  L  K  R :   L  L  *  S  I  I  S  F  Q  G  P  F  *  T  Q  Q  Q  M  M  W  S  L  S  M  F  I  T  T  *  L  N  L  S  S  *  H   : G  M  E  C  N  *  G  G  I  H  G  K  M  E  L  K  E  P  I  V  Q  L  C  L  E  K  I  G  H  T  N  F  R  *  K  I  R  L  E  V  S  S  I  F  L  H  S  F  S  R  K  L  L  E  A  M  V  L  F  E  S  T  T  L  R  L  F  L  F  H  L  R  V  L  I  M  N  M  I  Y  *  L  E  I  G  I  L  M  S  I  R :   T  *  E  F  L  *  K  M  D  A  K  C  L  F  Q  M  P  F  S  S  M  V  *  D  L  I  K  L  P  L  S  F  N  P  :  G  L  P  I  D  *  E  S  R  T  *  D  *  K  Q  P  *  I  S  K  S  R  I  M  K  C  F  W  W  R  L  K  E  P  T  L  Q  K  S  T  T  K  V  *  T  S  M  L  V  N  L  I  L  F  L  L  L  Q  R  T  T  A  I  I  A  R  I </second_frame>
            <third_frame>   Y  N  F  Y  F  C  *  C  P  F  K  T  T  S  L  *  L  G  C  F  N  F  L  *  C  T  H  W  R  S  *  R   : G  Y  Y  D  Q  *  S  V  S  R  A  P  F  E  H  N  N  K  *  C  G  H  C  Q  C  L  *  Q  L  D  *  T  F  P  H  D  M  :  E  W  S  A  I  K  E  E  F  M  A  R  W  S  *  R  N  Q  L  S  N  Y  A  W  K  K  L  D  I  Q  I  S  D  E  R  S  D  W  K  F  L  L  F  S  F  T  L  F  P  E  S  C  W  R  L  W  S  Y  S  N  Q  Q  R  *  D  C  S  S  S  I  Y  A  S  *  L  *  I  *  Y  T  N  W  R  L  V  F  *  *  V  *   : G  L  E  N  F  S  R  R  W  M  Q  N  A  F  S  R  C  H  S  H  Q  W  Y  E  I  *  S  S  Y  L  *  V  S  T  R :   G  Y  L  *  I  E  N  L  E  H  R  I  K  N  N  L  K  F  Q  N  P  G  S  *  N  A  F  G  G  D  *  R  S  L  H  F  K  K  V  P  P  K  S  R  H  P  C  W  S  I  L  F  C  S  C  Y  C  K  E  P  Q  L  *  *  L  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0096I08.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="23857" stop="23955"/>
                    <exon start="24066" stop="24175"/>
                    <exon start="24617" stop="24887"/>
                    <exon start="24979" stop="25081"/>
                    <exon start="25355" stop="25554"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>783</number_coding_nucleotides>
                  <number_encoded_amino_acids>261</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FTISTFVSVHSKLLHFDWVVSISSNALIGDPKEVIMINNQFPGPLLNTTTNDVVIVNVYNNLTEPFLMTWNGVQLRRNSWQDGVEGTNCPIMPGKNWTYKFQMKDQIGSFFYFPSLFFQKAAGGYGPIRINNVETVPLPFTRPDYEYDILIGDWYFDEYKDLRISLEDGCKMPFPDAILINGMRSDQATFEFQPGATYRLRISNIGLKTTLNFKIQDHEMLLVETEGAYTSKKYHQSLDIHVGQSYSVLVTAKNHSYNSSY</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="+" PGL_start="30954" PGL_stop="31827"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="30954" e_stop="31680"/>
            <exon e_start="31743" e_stop="31827"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.990"/>
          <exon-only e_score="0.882"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.990">
            <gDNA_exon_boundary e_start="30954" e_stop="31680" e_length="727"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="31681" i_stop="31742" i_length="62"/>
          </intron>
          <exon e_serial="2" e_score="0.882">
            <gDNA_exon_boundary e_start="31743" e_stop="31827" e_length="85"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="30954" stop="31680"/>
              <exon start="31743" stop="31827"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U318529" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AACATTCACTCACACGCTATTATTTTCTCCAATAACTAACCAAATTCTTCTAGAACAATTATTCCAAATCTATGGCTTCTTCTTCTTTTCTTCTCTCCACTTCAATTACCGGCTCTAAACTCTCCGCCGCTGCACCACCGCGGAGTTCTGTTAGCTTCAAGCAGCGGCCGTTCTCTGTTTCCGCCGCGTACTCCACTGCGGAGAGGACTTCTACTGCTACTACTAGTAGCTCTACAATCGCCTCACATACATCGTTATACGAAGTTTTAGGGATTCAATTTGGAGCTAATTCTCATGAAATTAAGTCTGCTTACCGGAAATTAGCCAGAATTTTGCATCCAGATGTTCGTAATTCGTCGGCGGAGGACTTTATAAGAGTCCAATCAGCGTATGCTACTCTTTCCGATCCGGAAAAACGTGCTAATTATGATCGGAACCTATTTGGAAATAGAATTGCAAGGCCTGTTGATTTCTCAACGGCGGGAGCTCGCAGCCATTATACTGTTCGCCGAGGATGGGAAACCGATCAGTGTTGGTAGAATTTTTCGAAATCTCCCGCCCGATTAGTCACAAAATTTAGATGAGCACCACTTAATTTCTGATCGTAACTCAAATCTGAAATTTCTTATAACGATAATAAGACCCGTTATTTGTACAGTACATGTAAATGTGACTTTATGTATATAATACTTTAAAAATTTGTTATGTGATTTGGGATTAAGATAAA : ATTAGAATTTACGATATACTTACCTTTTTTTTATAACCACATAAATAATCTTTAATATTTAGTCAAATACTATTACGTACGTAAT</gDNA_template>
            <first_frame> N  I  H  S  H  A  I  I  F  S  N  N  *  P  N  S  S  R  T  I  I  P  N  L  W  L  L  L  L  F  F  S  P  L  Q  L  P  A  L  N  S  P  P  L  H  H  R  G  V  L  L  A  S  S  S  G  R  S  L  F  P  P  R  T  P  L  R  R  G  L  L  L  L  L  L  V  A  L  Q  S  P  H  I  H  R  Y  T  K  F  *  G  F  N  L  E  L  I  L  M  K  L  S  L  L  T  G  N  *  P  E  F  C  I  Q  M  F  V  I  R  R  R  R  T  L  *  E  S  N  Q  R  M  L  L  F  P  I  R  K  N  V  L  I  M  I  G  T  Y  L  E  I  E  L  Q  G  L  L  I  S  Q  R  R  E  L  A  A  I  I  L  F  A  E  D  G  K  P  I  S  V  G  R  I  F  R  N  L  P  P  D  *  S  Q  N  L  D  E  H  H  L  I  S  D  R  N  S  N  L  K  F  L  I  T  I  I  R  P  V  I  C  T  V  H  V  N  V  T  L  C  I  *  Y  F  K  N  L  L  C  D  L  G  L  R  *   : N  *  N  L  R  Y  T  Y  L  F  F  I  T  T  *  I  I  F  N  I  *  S  N  T  I  T  Y  V   </first_frame>
            <second_frame>  T  F  T  H  T  L  L  F  S  P  I  T  N  Q  I  L  L  E  Q  L  F  Q  I  Y  G  F  F  F  F  S  S  L  H  F  N  Y  R  L  *  T  L  R  R  C  T  T  A  E  F  C  *  L  Q  A  A  A  V  L  C  F  R  R  V  L  H  C  G  E  D  F  Y  C  Y  Y  *  *  L  Y  N  R  L  T  Y  I  V  I  R  S  F  R  D  S  I  W  S  *  F  S  *  N  *  V  C  L  P  E  I  S  Q  N  F  A  S  R  C  S  *  F  V  G  G  G  L  Y  K  S  P  I  S  V  C  Y  S  F  R  S  G  K  T  C  *  L  *  S  E  P  I  W  K  *  N  C  K  A  C  *  F  L  N  G  G  S  S  Q  P  L  Y  C  S  P  R  M  G  N  R  S  V  L  V  E  F  F  E  I  S  R  P  I  S  H  K  I  *  M  S  T  T  *  F  L  I  V  T  Q  I  *  N  F  L  *  R  *  *  D  P  L  F  V  Q  Y  M  *  M  *  L  Y  V  Y  N  T  L  K  I  C  Y  V  I  W  D  *  D  K  :  I  R  I  Y  D  I  L  T  F  F  L  *  P  H  K  *  S  L  I  F  S  Q  I  L  L  R  T  *  </second_frame>
            <third_frame>   H  S  L  T  R  Y  Y  F  L  Q  *  L  T  K  F  F  *  N  N  Y  S  K  S  M  A  S  S  S  F  L  L  S  T  S  I  T  G  S  K  L  S  A  A  A  P  P  R  S  S  V  S  F  K  Q  R  P  F  S  V  S  A  A  Y  S  T  A  E  R  T  S  T  A  T  T  S  S  S  T  I  A  S  H  T  S  L  Y  E  V  L  G  I  Q  F  G  A  N  S  H  E  I  K  S  A  Y  R  K  L  A  R  I  L  H  P  D  V  R  N  S  S  A  E  D  F  I  R  V  Q  S  A  Y  A  T  L  S  D  P  E  K  R  A  N  Y  D  R  N  L  F  G  N  R  I  A  R  P  V  D  F  S  T  A  G  A  R  S  H  Y  T  V  R  R  G  W  E  T  D  Q  C  W  *  N  F  S  K  S  P  A  R  L  V  T  K  F  R  *  A  P  L  N  F  *  S  *  L  K  S  E  I  S  Y  N  D  N  K  T  R  Y  L  Y  S  T  C  K  C  D  F  M  Y  I  I  L  *  K  F  V  M  *  F  G  I  K  I  K :   L  E  F  T  I  Y  L  P  F  F  Y  N  H  I  N  N  L  *  Y  L  V  K  Y  Y  Y  V  R  N </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0096I08.1" strand="+"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="31007" stop="31492"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>483</number_coding_nucleotides>
                  <number_encoded_amino_acids>161</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NNYSKSMASSSFLLSTSITGSKLSAAAPPRSSVSFKQRPFSVSAAYSTAERTSTATTSSSTIASHTSLYEVLGIQFGANSHEIKSAYRKLARILHPDVRNSSAEDFIRVQSAYATLSDPEKRANYDRNLFGNRIARPVDFSTAGARSHYTVRRGWETDQCW*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="+" PGL_start="34248" PGL_stop="38233"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="34248" e_stop="34617"/>
            <exon e_start="34686" e_stop="34734"/>
            <exon e_start="34820" e_stop="34871"/>
            <exon e_start="37201" e_stop="37364"/>
            <exon e_start="37658" e_stop="37771"/>
            <exon e_start="38198" e_stop="38233"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.863" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.930" e_score="1.000"/>
          <exon-intron don_prob="0.967" acc_prob="0.994" e_score="0.974"/>
          <exon-only e_score="0.972"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="34248" e_stop="34617" e_length="370"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="34618" i_stop="34685" i_length="68"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="34686" e_stop="34734" e_length="49"/>
          </exon>
          <intron i_serial="2" don_prob="0.998" acc_prob="0.995">
            <gDNA_intron_boundary i_start="34735" i_stop="34819" i_length="85"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="34820" e_stop="34871" e_length="52"/>
          </exon>
          <intron i_serial="3" don_prob="0.993" acc_prob="0.863">
            <gDNA_intron_boundary i_start="34872" i_stop="37200" i_length="2329"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="37201" e_stop="37364" e_length="164"/>
          </exon>
          <intron i_serial="4" don_prob="0.993" acc_prob="0.930">
            <gDNA_intron_boundary i_start="37365" i_stop="37657" i_length="293"/>
          </intron>
          <exon e_serial="5" e_score="0.974">
            <gDNA_exon_boundary e_start="37658" e_stop="37771" e_length="114"/>
          </exon>
          <intron i_serial="5" don_prob="0.967" acc_prob="0.994">
            <gDNA_intron_boundary i_start="37772" i_stop="38197" i_length="426"/>
          </intron>
          <exon e_serial="6" e_score="0.972">
            <gDNA_exon_boundary e_start="38198" e_stop="38233" e_length="36"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34248" stop="34617"/>
              <exon start="34686" stop="34734"/>
              <exon start="34820" stop="34871"/>
              <exon start="37201" stop="37364"/>
              <exon start="37658" stop="37771"/>
              <exon start="38198" stop="38233"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U332800" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CAAAAATGGCTAATGTAATGAAGCCTCTGATGAATTGGCCAAAATGGCATCACTATTTATACGTTCGCGCTTCATTCATCCACTTTGTTCAATCTCAATCTCAATCTCCACTCTTCTCAACCTGCAATGTTCGCCGACTGCCGTCGTTCACGGCATCACCTTCCGGTTACCGGCAAGCTCATTTTCGTTCCGGCGCGGCACTTAAATCACGTGAAAGTCCATTACCGTTAGATCAATCAGAGGGCGACAGCGATTCCGATGAAAAAACAAGGAAGAGTCGTAACGAGAAGAAGCGTGAAGCTCGACGCGCCGTCCGGTGGGCTATGGATTTAGCTAAGTTCTCTGCTCCTCAAATTAAGCGCATTCTCAG : AGTGGCTTCAACGGAGCAAGAGGTATACGAAGCCGTTATGCTGGCCAAG : AGACTAGGTCCTGATGTACGAGAAGGAAAGCGAAGGCAATTCAGTTACATAG : GTAGATTATTGCGAGAAGTTAAGCCTGAATTGATGGATGGTTTAATTCAGGCAACAAAAGATGGAGACCAAACTAAATTTCAGGCTTTATCTGGTTCGGAACTTTCGGCTACCGAAGATGTTGATGAGGAAGTTGAAGAGACTGAATATGAGGATGACGAAGAG : AGTTCTGAGGACAATATTGCTTTAGCCGATAGATGGTTTGATGGCTTGGTCAATAAGGACGTTGACATCTCTAAAGAAATCTATTCTCTAAGTGAGGTTGATTTTGATCGCCAG : GAGTTACGTGGTCTTGTTAGGAATGTACAATCAATA</gDNA_template>
            <first_frame> Q  K  W  L  M  *  *  S  L  *  *  I  G  Q  N  G  I  T  I  Y  T  F  A  L  H  S  S  T  L  F  N  L  N  L  N  L  H  S  S  Q  P  A  M  F  A  D  C  R  R  S  R  H  H  L  P  V  T  G  K  L  I  F  V  P  A  R  H  L  N  H  V  K  V  H  Y  R  *  I  N  Q  R  A  T  A  I  P  M  K  K  Q  G  R  V  V  T  R  R  S  V  K  L  D  A  P  S  G  G  L  W  I  *  L  S  S  L  L  L  K  L  S  A  F  S   : E  W  L  Q  R  S  K  R  Y  T  K  P  L  C  W  P  R :   D  *  V  L  M  Y  E  K  E  S  E  G  N  S  V  T  *  :  V  D  Y  C  E  K  L  S  L  N  *  W  M  V  *  F  R  Q  Q  K  M  E  T  K  L  N  F  R  L  Y  L  V  R  N  F  R  L  P  K  M  L  M  R  K  L  K  R  L  N  M  R  M  T  K  R :   V  L  R  T  I  L  L  *  P  I  D  G  L  M  A  W  S  I  R  T  L  T  S  L  K  K  S  I  L  *  V  R  L  I  L  I  A  R :   S  Y  V  V  L  L  G  M  Y  N  Q   </first_frame>
            <second_frame>  K  N  G  *  C  N  E  A  S  D  E  L  A  K  M  A  S  L  F  I  R  S  R  F  I  H  P  L  C  S  I  S  I  S  I  S  T  L  L  N  L  Q  C  S  P  T  A  V  V  H  G  I  T  F  R  L  P  A  S  S  F  S  F  R  R  G  T  *  I  T  *  K  S  I  T  V  R  S  I  R  G  R  Q  R  F  R  *  K  N  K  E  E  S  *  R  E  E  A  *  S  S  T  R  R  P  V  G  Y  G  F  S  *  V  L  C  S  S  N  *  A  H  S  Q  :  S  G  F  N  G  A  R  G  I  R  S  R  Y  A  G  Q   : E  T  R  S  *  C  T  R  R  K  A  K  A  I  Q  L  H  R :   *  I  I  A  R  S  *  A  *  I  D  G  W  F  N  S  G  N  K  R  W  R  P  N  *  I  S  G  F  I  W  F  G  T  F  G  Y  R  R  C  *  *  G  S  *  R  D  *  I  *  G  *  R  R   : E  F  *  G  Q  Y  C  F  S  R  *  M  V  *  W  L  G  Q  *  G  R  *  H  L  *  R  N  L  F  S  K  *  G  *  F  *  S  P   : G  V  T  W  S  C  *  E  C  T  I  N  </second_frame>
            <third_frame>   K  M  A  N  V  M  K  P  L  M  N  W  P  K  W  H  H  Y  L  Y  V  R  A  S  F  I  H  F  V  Q  S  Q  S  Q  S  P  L  F  S  T  C  N  V  R  R  L  P  S  F  T  A  S  P  S  G  Y  R  Q  A  H  F  R  S  G  A  A  L  K  S  R  E  S  P  L  P  L  D  Q  S  E  G  D  S  D  S  D  E  K  T  R  K  S  R  N  E  K  K  R  E  A  R  R  A  V  R  W  A  M  D  L  A  K  F  S  A  P  Q  I  K  R  I  L  R :   V  A  S  T  E  Q  E  V  Y  E  A  V  M  L  A  K  :  R  L  G  P  D  V  R  E  G  K  R  R  Q  F  S  Y  I   : G  R  L  L  R  E  V  K  P  E  L  M  D  G  L  I  Q  A  T  K  D  G  D  Q  T  K  F  Q  A  L  S  G  S  E  L  S  A  T  E  D  V  D  E  E  V  E  E  T  E  Y  E  D  D  E  E  :  S  S  E  D  N  I  A  L  A  D  R  W  F  D  G  L  V  N  K  D  V  D  I  S  K  E  I  Y  S  L  S  E  V  D  F  D  R  Q  :  E  L  R  G  L  V  R  N  V  Q  S  I </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0096I08.1" strand="+"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="34250" stop="34617"/>
                    <exon start="34686" stop="34734"/>
                    <exon start="34820" stop="34871"/>
                    <exon start="37201" stop="37364"/>
                    <exon start="37658" stop="37771"/>
                    <exon start="38198" stop="38233"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>783</number_coding_nucleotides>
                  <number_encoded_amino_acids>261</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KMANVMKPLMNWPKWHHYLYVRASFIHFVQSQSQSPLFSTCNVRRLPSFTASPSGYRQAHFRSGAALKSRESPLPLDQSEGDSDSDEKTRKSRNEKKREARRAVRWAMDLAKFSAPQIKRILRVASTEQEVYEAVMLAKRLGPDVREGKRRQFSYIGRLLREVKPELMDGLIQATKDGDQTKFQALSGSELSATEDVDEEVEETEYEDDEESSEDNIALADRWFDGLVNKDVDISKEIYSLSEVDFDRQELRGLVRNVQSI</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="38574" PGL_stop="38726"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="38574" e_stop="38726"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.961"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.961">
            <gDNA_exon_boundary e_start="38574" e_stop="38726" e_length="153"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38574" stop="38726"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U333078" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GGAGAGAGTATTCTTTCTACTGTAGATCAACATCCACTGTTCAATGCCATAAGCCATGAACTTTTGAGTGAAACACTAGTACTGGAGTTGTGATGTTAAAAACATTGAAAATTTTGCATAATGTTTGCTTGATAGATGACATTGGGATTGAGA</gDNA_template>
            <first_frame> G  E  S  I  L  S  T  V  D  Q  H  P  L  F  N  A  I  S  H  E  L  L  S  E  T  L  V  L  E  L  *  C  *  K  H  *  K  F  C  I  M  F  A  *  *  M  T  L  G  L  R </first_frame>
            <second_frame>  E  R  V  F  F  L  L  *  I  N  I  H  C  S  M  P  *  A  M  N  F  *  V  K  H  *  Y  W  S  C  D  V  K  N  I  E  N  F  A  *  C  L  L  D  R  *  H  W  D  *   </second_frame>
            <third_frame>   R  E  Y  S  F  Y  C  R  S  T  S  T  V  Q  C  H  K  P  *  T  F  E  *  N  T  S  T  G  V  V  M  L  K  T  L  K  I  L  H  N  V  C  L  I  D  D  I  G  I  E  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0096I08.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 8 chains have been computed
$ 
$ memory statistics:
$ 12416 bytes spliced alignments in total
$ 6 spliced alignments have been stored
$ 2069 bytes was the average size of a spliced alignment
$ 12144 bytes predicted gene locations in total
$ 6 predicted gene locations have been stored
$ 2024 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 9 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 20:22:10
-->
