Sol Genomics Network

This unigene is from an out-of-date build, Tomato 200607 #1
It has been split into SGN-U582122 and SGN-U582123 in the current build, Tomato 200607 #2

Unigene SGN-U318809

Unigene Basic Information

Unigene ID:	SGN-U318809
Unigene Build:	Tomato 200607 #1
Date:	2006-07-27
Organism:	S.lycopersicum S.habrochaites S.pennellii S.pimpinellifolium S.peruvianum S.cheesmaniae S.lycopersicoides
Alternative ID:	318809
mRNA sequence:	Length: 3924 bp

>SGN-U318809 Tomato 200607 #1 (11 members)
TCAAAGAAGGTTGTAGAACAAAGAAAAGATGAGTTCAATTTCGTTAGAATGTTTTGATGATTTTACATAGAGAAGTTTATTCAAAGTATG
TTAGGTAAATGTTGGAGAGTGAAACACCAAAAACTGTTGTGATTATTATATGAATGAAAATGTAGATCCATATTTTGCAGTATCAGCTCT
TAATTCTCTCATATTCTGACACCCTTTTCTCCCTTGAAAAGATAAGAGGATGATGTCTTCACGTGATGTCCATAACTTCCTGTTAACTTG
TTATTCGAGAGCTGCACGACAAATGAAGATTGAAGGTTATGCTAATTTTGGGATGACACCAAATAACTATGTTTGGAAAGGAAACAATGG
AGCAACTCACTTGTTTCTAATTTGAGTCGAGATGTCGTCTTCAAGACCTAGCCAATCTTCCACCACTTCATCAAGATCAAAGCACAGTGC
TAGGATCGTTGCACAGACCTCTATAGATGCAAAGCTGCATGCAGACTTTGAGGAGTCAGGTGATTCCTTTGACTATTCAAGCTCAGTGAG
GGTTACAAGTGTCGCTGGAGATGAGGAAAAACCAAAGTCAGACAAAGTTACCACCGCCTACCTTCATCAGATCCAAAAGGGCAAGTTTAT
CCAGCCATTTGGTTGTCTGTTAGCCCTGGATGAGAAAACATTAAAGGTCATAGCATTCAGTGAGAATGCCCCTGAAATGCTGACCATGGT
TAGCCATGCTGTTCCAAGTGTTGGTGAGCATCCAGTTCTTGGCATCGGGACTGATATCAGAACGATCTTCACTGGTCCTAGTGGCGCAGC
ATTGCAGAAAGCCTTGGGGTTTGGGGAGGTTTCTCTGTTAAATCCTGTCCTTGTTCACTGTAAAAATTCTGGAAAGCCATTTTATGCAAT
TGTTCATAGGGTTACAGGTAGCTTAATCCTTGATTTTGAGCCTGTGAAGCCCTATGAAGTACCCATGACTGCTGCAGGGGCCCTGCAGTC
ATATAAACTAGCAGCCAAAGCCATTACTCGCTTGCAGTCCTTGCCCAGTGGCAGTATGGAAAGACTCTGTGACACAATGGTTCAGGAGGT
TTTTGAACTCACAGGTTATGACAGGGTGATGGGATATAAGTTTCACGAGGATGATCATGGAGAGGTGGTGTCTGAGATCACAAAGCCTGG
CCTCGAGCCTTACCTTGGTTTACATTATCCTGCTACAGATATTCCACAGGCTGCACGGTTTTTGTTTATGAAGAATAAGGTCCGAATGAT
TTGTGATTGCCGAGCAAAGCATGTGAAGGTAGTCCAAGATGAGAAGCTTCCATTTGATTTAACATTGTGCGGCTCTACTCTTAGGGCCCC
TCACTACTGCCATTTACAGTATATGGAGAACATGAATTCAATTGCATCACTTGTAATGGCAGTTGTGGTCAATGACGGGGATGAAGAAGG
AGAAAGCTCTGATTCTTCACAATCTCAAAAAAGAAAAAGGCTATGGGGCCTGGTTGTTTGCCACAACACGACCCCAAGGTTCGTTCCCTT
TCCACTGAGGTATGCATGTGAGTTTCTTGCACAAGTCTTTGCCATACACGTCAACAAGGAACTGGAATTGGAAAATCAATTCCTTGAGAA
AAATATTCTGCGTACTCAGACTCTCTTGTGTGATATGCTGATGCGAGATGCTCCCCTAGGTATCGTGTCACAGAGCCCCAACATTATGGA
TCTTGTCAAATGTGATGGTGCGGCTTTGCTCTATAAGAATAAGATACATCGATTAGGAATGAACCCAAGTGACTTTCAGCTGCAGGATAT
AGTATCATGGCTTTGTGAGTATCATACAGATTCCACAGGCTTGAGTACGGATAGCTTGTATGATGCTGGTTTTCCTGGGGCTCTTGCTCT
TGGTGATGCAGTCTGTGGTATGGCAGCTGTGAGAATATCTGATAAGGACTGGCTGTTCTGGTTCAGGTCACACACTGCTGCTGAAGTTAG
ATGGGGTGGTGCAAAGCATGAACCTGGTGAGAAGGATGATGGCAGGAAAATGCATCCTAGGTCATCATTCAAAGCATTCCTGGAAGTTGT
CAAGACAAGGAGTATACCCTGGAAGGATTATGAGATGGATGCAATCCACTCTTTGCAGCTCATACTAAGAAATGCTTTCAAGGATGCTGA
GGTTGTGAATTCAAATACCAATTCCATCTATAAGAAGCTTAATGATCTAAAGATTGACGGAATGCAGGAACTAGAATCAGTGACTGCTGA
AATGGTCCGCTTAATTGAAACAGCTTTAGTTCCTATATTAGCAGTTGATGTTGATGGGCAGGTTAATGGATGGAACACAAAAATAGCTGA
ATTAACTGGTCTTCCTGTTGATGAAGCAATTGGGAAACATCTTCTCACTCTCGTGGAGGATTCATCAGTTGATACCGGGAATAAGATGTT
GGAATTAGCATTGCAGGGGAAAGAGGAAAAAAATGTAGAGTTTGAAATAAAAACACATGGGCCGTCAAGAGATTCTAGTCCAATCAGCTT
AATCGTGAATGCATGTGCAAGCAAAGATGTTCGGGATAATGTTGTGGGTGTGTGTTTTATGGCTCATGATATAACTGGACAAAAAAGCAT
CATGGACAAGTTCACCCGAATCGAAGGTGACTATAGAGCGATTATCCAAAATCCTCACCCATTGATCCCACCAATATTTGGCACTGATCA
ATTTGGCTGGTGTTCTGAGTGGAACACTGCAATGACCAAGTTAACTGGATGGCGGCGTGATGATGTTATGGATAAAATGCTGTTAGGGGA
GGTTTTTGGGACACAGGCAGCTTGCTGCCGTCTCAAGAATCAAGAAGCGTTTGTAAATTTCGGAGTTGTACTAAACAATGCTATCACTGG
TCAAGAATCTGAGAAGATTCCTTTTGGTTTCTTTGCACGTTACGGGAAATATGTGGAGTGCTTACTCTGTGTGAGCAAAAGGTTAGATAA
AGAGGGTGCAGTCACGGGACTCTTTTGTTTCCTGCAACTTGCAAGCCATGAGTTGCAACAAGCTCTTTATGTTCAACGATTATCAGAACA
AACTGCGTTGAAAAGATTGAAAGTATTAGCTTACATAAGGAGGCAAATTAGGAATCCTCTTTCTGGGATTATATTCTCTCGGAAGATGCT
AGAGGGGACTAGCTTGGGCGAAGAGCAGAAAAATATACTGCATACAAGTGCACAGTGTCAGCGTCAGCTCAACAAAATTCTTGATGATAC
AGATCTTGATAGCATCATAGATGGTTATTTGGATCTGGAGATGCTCGAGTTTAAGCTGCATGAAGTATTGGTAGCATCTATAAGTCAAGT
CATGATGAAGAGCAACGGAAAGAATATAATGATCTCGAATGACATGGTTGAAGATCTTCTTAATGAAACTTTATACGGAGATAGTCCGAG
GCTTCAACAAGTCCTTGCTAACTTTTTGTTAGTATCTGTGAACGCTACACCAAGTGGCGGCCAGCTTAGTATTTCAGGCAGGCTAACAAA
AGATCGTATAGGAGAATCTGTTCAGCTTGCTCTCTTGGAATTCAGGATAAGACATACAGGGGGTGGAGTGCCAGAAGAATTGCTTGGCCA
AATGTTTGGTAGTGAAGCCGATGCATCTGAAGAAGGGATCAGCTTACTTGTCAGCAGAAAACTGGTCAAGCTGATGAATGGGGAAGTTCA
GTATCTAAGAGAGGCTGGGCAATCAACTTTCATTATATCCGTTGAACTCGCAGTGGCTACCAACTCAAGCTGATGATTTTCAGTACCCTC
TTAAGGTCCTAAACTAATTCTGCAGGTCTGTATAGTGGAAGACGATTTCAAGTTTAAGATTTCCTCTGTTTTGTGCTCGTTCTTGTCATT
TTCCCTCCTCTTTGTTACATTGTTTGCCTTGGATTTTTAAAAGTCACTTGAACA

[Blast] [AA Translation]

Associated Loci (1)

Locus symbol	Locus name	Gene activity
phyA	phytochrome A

Genomic locations (0)

None

Library representation (8)

Organism	Library	Description	Library size (#ESTs)	Ests in this Unigene
Solanum lycopersicum	FA	Fruit Mixture of Immature green, mature green, breaker, turning, and red ripe stages	13933	2
Solanum lycopersicum	cLEC	combined undifferentiated and shooting callus 7-10 days post germination	14114	1
Solanum lycopersicum	cLED	ovary 5 days pre-anthesis to 5 days post-anthesis	9878	3
Solanum lycopersicum	cLEI	whole seedlings germinating seed	3927	1
Solanum lycopersicum	cLEM	fruit immature green fruit	4240	1
Solanum lycopersicum	cLEW	mixed roots grown under different nutrient and mineral difficiencies 4-8 weeks	3175	1
Solanum lycopersicum	cTOF	shoot developing shoots from 4-6wks old plants	9122	1
Solanum lycopersicum	vSlycmRNA		8362	1

mRNA member sequences (11)

To view details for a particular member sequence, click the SGN-E# identifier.

Markers Information (0)

Expression Data (0)

Annotations (manual: 3 | blast: 2 | go: 8 )

Protein prediction analysis (2)

Prediction based on ESTScan [ Show ESTScan Detail]

>SGN-P121582 (1187 Aa)

MSSRDVHNFLLTCYSRAARQMKIEGYANFGMTPNNYVWKGNNGATXLVSNLSEMSSSRPSQSSTTSSRSKHSARIVAQTSIDAKLHADFE
ESGDSFDYSSSVRVTSVAGDEEKPKSDKVTTAYLHQIQKGKFIQPFGCLLALDEKTLKVIAFSENAPEMLTMVSHAVPSVGEHPVLGIGT
DIRTIFTGPSGAALQKALGFGEVSLLNPVLVHCKNSGKPFYAIVHRVTGSLILDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSG
SMERLCDTMVQEVFELTGYDRVMGYKFHEDDHGEVVSEITKPGLEPYLGLHYPATDIPQAARFLFMKNKVRMICDCRAKHVKVVQDEKLP
FDLTLWALLLGPLTTAIYSXMENMNSIASLVMAVVVNDGDEEGESSDSSQSQXKKKAMGPGCLPQHDPKVRSLSTEDACEFLAQVFAIHV
NKELELENQFLEKNILRTQTLLCDMLMRDAPLGIVSQSPNIMDLVKCDGAALLYKNKIHRLGMNPSDFQLQDIVSWLCEYHTDSTGLSTD
SLYDAGFPGALALGDAVCGMAAVRISDKDWLFWFRSHTAAEVRWGGAKHEPGEKDDGRKMHPRSSFKAFLEVVKTRSIPWKDYEMDAIHS
LQLILRNAFKDAEVVNSNTNSIYKKLNDLKIDGMQELESVTAEMVRLIETALVPILAVDVDGQVNGWNTKIAELTGLPVDEAIGKHLLTL
VEDSSVDTGNKMLELALQGKEEKNVEFEIKTHGPSRDSSPISLIVNACASKDVRDNVVGVCFMAHDITGQKSIMDKFTRIEGDYRAIIQN
PHPLIPPIFGTDQFGWCSEWNTAMTKLTGWRRDDVMDKMLLGEVFGTQAACCRLKNQEAFVNFGVVLNNAITGQESEKIPFGFFARYGKY
VECLLCVSKRLDKEGAVTGLFCFLQLASHELQQALYVQRLSEQTALKRLKVLAYIRRQIRNPLSGIIFSRKMLEGTSLGEEQKNILHTSA
QCQRQLNKILDDTDLDSIIDGYLDLEMLEFKLHEVLVASISQVMMKSNGKNIMISNDMVEDLLNETLYGDSPRLQQVLANFLLVSVNATP
SGGQLSISGRLTKDRIGESVQLALLEFRIRHTGGGVPEELLGQMFGSEADASEEGISLLVSRKLVKLMNGEVQYLREAGQSTFIIPLNSQ
WLPTQADDFQYPLKVLN

SignalP predicts non-secretion with a score of 0.166

IPR001294 Phytochrome
IPR003018 GAF
IPR000014 PAS
IPR003661 Histidine kinase A, N-terminal
IPR001093 IMP dehydrogenase/GMP reductase
IPR003594 ATP-binding region, ATPase-like

Prediction based on longest six frame method

>SGN-P248030 (1125 Aa)

VEMSSSRPSQSSTTSSRSKHSARIVAQTSIDAKLHADFEESGDSFDYSSSVRVTSVAGDEEKPKSDKVTTAYLHQIQKGKFIQPFGCLLA
LDEKTLKVIAFSENAPEMLTMVSHAVPSVGEHPVLGIGTDIRTIFTGPSGAALQKALGFGEVSLLNPVLVHCKNSGKPFYAIVHRVTGSL
ILDFEPVKPYEVPMTAAGALQSYKLAAKAITRLQSLPSGSMERLCDTMVQEVFELTGYDRVMGYKFHEDDHGEVVSEITKPGLEPYLGLH
YPATDIPQAARFLFMKNKVRMICDCRAKHVKVVQDEKLPFDLTLCGSTLRAPHYCHLQYMENMNSIASLVMAVVVNDGDEEGESSDSSQS
QKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKELELENQFLEKNILRTQTLLCDMLMRDAPLGIVSQSPNIMDLVKCDGAA
LLYKNKIHRLGMNPSDFQLQDIVSWLCEYHTDSTGLSTDSLYDAGFPGALALGDAVCGMAAVRISDKDWLFWFRSHTAAEVRWGGAKHEP
GEKDDGRKMHPRSSFKAFLEVVKTRSIPWKDYEMDAIHSLQLILRNAFKDAEVVNSNTNSIYKKLNDLKIDGMQELESVTAEMVRLIETA
LVPILAVDVDGQVNGWNTKIAELTGLPVDEAIGKHLLTLVEDSSVDTGNKMLELALQGKEEKNVEFEIKTHGPSRDSSPISLIVNACASK
DVRDNVVGVCFMAHDITGQKSIMDKFTRIEGDYRAIIQNPHPLIPPIFGTDQFGWCSEWNTAMTKLTGWRRDDVMDKMLLGEVFGTQAAC
CRLKNQEAFVNFGVVLNNAITGQESEKIPFGFFARYGKYVECLLCVSKRLDKEGAVTGLFCFLQLASHELQQALYVQRLSEQTALKRLKV
LAYIRRQIRNPLSGIIFSRKMLEGTSLGEEQKNILHTSAQCQRQLNKILDDTDLDSIIDGYLDLEMLEFKLHEVLVASISQVMMKSNGKN
IMISNDMVEDLLNETLYGDSPRLQQVLANFLLVSVNATPSGGQLSISGRLTKDRIGESVQLALLEFRIRHTGGGVPEELLGQMFGSEADA
SEEGISLLVSRKLVKLMNGEVQYLREAGQSTFIISVELAVATNSS

SignalP predicts non-secretion with a score of 0.03

No InterPro domain matches or not analyzed.

Gene Family (3)

Family Build (I value*)	Family ID	Annotation**	# Members
1.1	101374	Homeodomain-like	561
2	118742	PAS fold Phytochrome chromophore binding site GAF PAS - Molecular Function: signal transducer activity (GO:0004871) - Biological Process: signal transduction (GO:0007165) ATP-binding region ATPase-like - Molecular Function: ATP binding (GO:0005524) PAS fold-2 Phytochrome central region Histidine kinase - Biological Process: protein amino acid phosphorylation (GO:0006468) - Molecular Function: kinase activity (GO:0016301) Phytochrome - Biological Process: regulation of transcription DNA-dependent (GO:0006355) - Molecular Function: G-protein coupled photoreceptor activity (GO:0008020) Phytochrome A/B/C/D/E - Biological Process: red far-red light phototransduction (GO:0009585) - Molecular Function: photoreceptor activity (GO:0009881) - Biological Process: protein-tetrapyrrole linkage (GO:0017006) - Molecular Function: protein homodimerization activity (GO:0042803) - Biological Process: regulation of transcription (GO:0045449)	32
5	129213	PAS fold Phytochrome chromophore binding site GAF PAS - Molecular Function: signal transducer activity (GO:0004871) - Biological Process: signal transduction (GO:0007165) ATP-binding region ATPase-like - Molecular Function: ATP binding (GO:0005524) PAS fold-2 Phytochrome central region Histidine kinase - Biological Process: protein amino acid phosphorylation (GO:0006468) - Molecular Function: kinase activity (GO:0016301) Phytochrome - Biological Process: regulation of transcription DNA-dependent (GO:0006355) - Molecular Function: G-protein coupled photoreceptor activity (GO:0008020) Phytochrome A/B/C/D/E - Biological Process: red far-red light phototransduction (GO:0009585) - Molecular Function: photoreceptor activity (GO:0009881) - Biological Process: protein-tetrapyrrole linkage (GO:0017006) - Molecular Function: protein homodimerization activity (GO:0042803) - Biological Process: regulation of transcription (GO:0045449)	30

*i value: controls inflation, a process to dissipate family clusters. At high i value, genes tend to be separated into different families.
**Annotation: the most common InterPro annotation(s) of the Arabidopsis members in the family.

Preceding Unigenes (1)

Unigene	Build
SGN-U219608	Lycopersicon Combined #3

Accessions	Seedlots
Accessions		Breeding Program	Seedlot Name	Contents	Seedlot Location	Count	Weight(g)

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