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Expression Template: LesAffx.25827.1.S1_at

Template Basic Information

Template name:	LesAffx.25827.1.S1_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	SGN-U576040 SGN-U576040
External db links:	GenBank: AW037254

Annotations for unigene SGN-U576040 (manual: 2 | blast: 3 | go: 0 )

Manual annotations

Based on clone cLET-1-C3, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: "transcription factor, LIM" Annotation Keywords: transcription factor; DNA transcription; transcriptional regulation

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|62183959\|gb\|AAX73300.1\|	348	5e-94	87.71	537 bp (49.5%)	2
Description:	putative pollen specific LIM domain-containing protein [Solanum lycopersicum]
arabidopsis	blastx	At1G10200.1	274	8e-74	70.69	516 bp (47.6%)	2
Description:	transcription factor LIM, putative \| chr1:3346679-3347765 REVERSE
swissprot	blastx	P29675	266	2e-70	62.57	558 bp (51.5%)	2
Description:	Pollen-specific protein SF3 OS=Helianthus annuus GN=SF3 PE=2 SV=1

GO Terms Annotations

No Gene Ontology annotation

Annotations for unigene SGN-U576040 (manual: 2 | blast: 3 | go: 0 )

Manual annotations

Based on clone cLET-1-C3, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: "transcription factor, LIM" Annotation Keywords: transcription factor; DNA transcription; transcriptional regulation

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|62183959\|gb\|AAX73300.1\|	348	5e-94	87.71	537 bp (49.5%)	2
Description:	putative pollen specific LIM domain-containing protein [Solanum lycopersicum]
arabidopsis	blastx	At1G10200.1	274	8e-74	70.69	516 bp (47.6%)	2
Description:	transcription factor LIM, putative \| chr1:3346679-3347765 REVERSE
swissprot	blastx	P29675	266	2e-70	62.57	558 bp (51.5%)	2
Description:	Pollen-specific protein SF3 OS=Helianthus annuus GN=SF3 PE=2 SV=1

GO Terms Annotations

No Gene Ontology annotation

Probe Composition (11)

Probe name	Probe type	Template start coord	Template end coord	Spots
LesAffx.25827.1.S1_at:ProbePair0	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair1	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair10	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair2	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair3	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair4	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair5	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair6	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair7	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair8	PM	data not available	data not available	data not available
LesAffx.25827.1.S1_at:ProbePair9	PM	data not available	data not available	data not available

Graph: Expression Data by Experiment

Table: Expression Data by Experiment (24)

Experimental design name	Experiment name	Tissue	Experiment replicates	Replicates pValue<0.05	Mean	Median	SD	CV
Expression data from various tomato plant tissues	Gene expression data from Micro-Tom cotyledon	cotyledon	2	2	129.24	129.24	78.75	0.61
	Gene expression data from Aft red fruit flesh	endocarp	3	3	371.62	390.43	44.70	0.12
	Gene expression data from Line27859 red fruit flesh	endocarp	3	3	367.73	366.85	22.07	0.06
	Gene expression data from Micro-Tom orange fruit flesh	endocarp	2	2	382.07	382.07	55.39	0.14
	Gene expression data from Micro-Tom red fruit flesh	endocarp	3	3	695.84	693.39	33.56	0.05
	Gene expression data from Micro-Tom yellow fruit flesh	endocarp	2	2	445.82	445.82	79.42	0.18
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	549.46	555.22	31.97	0.06
	Gene expression data from Aft red fruit peel	exocarp	3	3	458.42	483.52	62.49	0.14
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	448.54	450.56	8.74	0.02
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	271.20	268.28	10.94	0.04
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	1294.29	1242.48	309.00	0.24
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	214.02	214.02	90.37	0.42
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	436.93	419.93	45.77	0.10
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	357.43	357.43	86.05	0.24
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	442.37	443.32	107.12	0.24
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	535.48	535.48	159.71	0.30
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	224.93	224.93	15.67	0.07
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	119.75	119.38	2.16	0.02
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	142.26	142.38	9.37	0.07
	Gene expression data from Aft mature green fruit flesh	mesocarp	3	3	568.82	587.11	52.35	0.09
	Gene expression data from Line27859 mature green fruit flesh	mesocarp	3	3	474.47	464.70	47.36	0.10
	Gene expression data from Micro-Tom mature green fruit flesh	mesocarp	3	3	747.89	691.38	269.89	0.36
	Gene expression data from Momotaro8 red fruit flesh	mesocarp	4	4	241.24	254.34	45.57	0.19
	Gene expression data from Micro-Tom root	root	3	3	624.92	631.26	18.23	0.03

Expression Data by Targets (experiment replicates) (67)

Experiment name	Target name	normalized_signal	pVal_call	flag
Gene expression data from Micro-Tom cotyledon	GSM480171 extract 1	73.5575	2e-4	P
	GSM480170 extract 1	184.927	2e-4	P
Gene expression data from Aft red fruit flesh	GSM480203 extract 1	403.85	2e-4	P
	GSM480205 extract 1	390.427	2e-4	P
	GSM480204 extract 1	320.595	2e-4	P
Gene expression data from Line27859 red fruit flesh	GSM480216 extract 1	390.225	2e-4	P
	GSM480215 extract 1	366.85	2e-4	P
	GSM480217 extract 1	346.107	2e-4	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480186 extract 1	421.237	2e-4	P
	GSM480185 extract 1	342.9	2e-4	P
Gene expression data from Micro-Tom red fruit flesh	GSM480187 extract 1	663.567	2e-4	P
	GSM480188 extract 1	730.56	2e-4	P
	GSM480189 extract 1	693.392	2e-4	P
Gene expression data from Micro-Tom yellow fruit flesh	GSM480183 extract 1	389.66	2e-4	P
	GSM480184 extract 1	501.981	2e-4	P
Gene expression data from Aft mature green fruit peel	GSM480206 extract 1	555.219	2e-4	P
	GSM480207 extract 1	515.002	2e-4	P
	GSM480208 extract 1	578.162	2e-4	P
Gene expression data from Aft red fruit peel	GSM480209 extract 1	387.285	2e-4	P
	GSM480211 extract 1	483.516	2e-4	P
	GSM480210 extract 1	504.472	2e-4	P
Gene expression data from Line27859 mature green fruit peel	GSM480218 extract 1	450.558	2e-4	P
	GSM480219 extract 1	456.092	2e-4	P
	GSM480220 extract 1	438.961	2e-4	P
Gene expression data from Line27859 red fruit peel	GSM480221 extract 1	283.307	2e-4	P
	GSM480222 extract 1	268.285	2e-4	P
	GSM480223 extract 1	262.008	2e-4	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480190 extract 1	1625.92	2e-4	P
	GSM480191 extract 1	1014.48	2e-4	P
	GSM480192 extract 1	1242.48	2e-4	P
Gene expression data from Micro-Tom orange fruit peel	GSM480195 extract 1	277.928	2e-4	P
	GSM480196 extract 1	150.122	2e-4	P
Gene expression data from Micro-Tom red fruit peel	GSM480197 extract 1	402.1	2e-4	P
	GSM480198 extract 1	419.926	2e-4	P
	GSM480199 extract 1	488.769	2e-4	P
Gene expression data from Micro-Tom yellow fruit peel	GSM480193 extract 1	418.271	2e-4	P
	GSM480194 extract 1	296.582	2e-4	P
Gene expression data from Momotaro8 red fruit peel	GSM480229 extract 1	459.274	2e-4	P
	GSM480228 extract 1	571.625	2e-4	P
	GSM480231 extract 1	311.207	2e-4	P
	GSM480230 extract 1	427.372	2e-4	P
Gene expression data from Micro-Tom hypocotyl	GSM480168 extract 1	648.418	2e-4	P
	GSM480169 extract 1	422.547	2e-4	P
Gene expression data from Micro-Tom 3rd leaf	GSM480173 extract 1	213.85	2e-4	P
	GSM480172 extract 1	236.008	2e-4	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480174 extract 1	122.072	2e-4	P
	GSM480176 extract 1	119.38	2e-4	P
	GSM480175 extract 1	117.792	2e-4	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480177 extract 1	151.573	2e-4	P
	GSM480178 extract 1	142.38	2e-4	P
	GSM480179 extract 1	132.825	2e-4	P
Gene expression data from Aft mature green fruit flesh	GSM480200 extract 1	509.783	2e-4	P
	GSM480201 extract 1	587.113	2e-4	P
	GSM480202 extract 1	609.569	2e-4	P
Gene expression data from Line27859 mature green fruit flesh	GSM480214 extract 1	432.753	2e-4	P
	GSM480213 extract 1	464.703	2e-4	P
	GSM480212 extract 1	525.959	2e-4	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480180 extract 1	691.378	2e-4	P
	GSM480181 extract 1	510.728	2e-4	P
	GSM480182 extract 1	1041.56	2e-4	P
Gene expression data from Momotaro8 red fruit flesh	GSM480224 extract 1	175.683	2e-4	P
	GSM480225 extract 1	280.611	2e-4	P
	GSM480226 extract 1	258.815	2e-4	P
	GSM480227 extract 1	249.867	2e-4	P
Gene expression data from Micro-Tom root	GSM480165 extract 1	604.357	2e-4	P
	GSM480166 extract 1	631.257	2e-4	P
	GSM480167 extract 1	639.133	2e-4	P

Correlation analysis (0)

No correlation analysis was found associated to this template

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