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Expression Template: AFFX-Les-gapdh-3_at

Template Basic Information

Template name:	AFFX-Les-gapdh-3_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	SGN-U580213
External db links:	GenBank: U97257.1

Annotations for unigene SGN-U580213 (manual: 2 | blast: 3 | go: 0 )

Manual annotations

Based on clone cLED-5-A4, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: glyceraldehyde-3-phosphate dehydrogenase Annotation Keywords: photosynthesis; Calvin cycle; light-regulated enzyme

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|22094840\|gb\|AAM92008.1\|AF527779_1	599	2e-169	99.38	960 bp (70.8%)	2
Description:	glyceraldehyde 3-phosphate dehydrogenase [Solanum tuberosum] >gi81074359\|gb\|ABB55366.1\| glycera&hellip
arabidopsis	blastx	At1G13440.1	560	6e-160	91.88	960 bp (70.8%)	2
Description:	Symbols: GAPC-2 \| GAPC-2; glyceraldehyde-3-phosphate dehydrogenase \| chr1:4608462-4610491 REVERSE
swissprot	blastx	P09094	576	1e-163	95.6	954 bp (70.4%)	2
Description:	Glyceraldehyde-3-phosphate dehydrogenase, cytosolic (Fragment) OS=Nicotiana tabacum GN=GAPC PE=&hellip

GO Terms Annotations

No Gene Ontology annotation

Probe Composition (11)

Probe name	Probe type	Template start coord	Template end coord	Spots
AFFX-Les-gapdh-3_at:ProbePair0	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair1	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair10	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair2	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair3	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair4	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair5	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair6	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair7	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_at:ProbePair8	PM	data not available	data not available	data not available
AFFX-Les-gapdh-3_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	4144.13	4144.13	594.86	0.14
	Gene expression data from Aft mature green fruit flesh	endocarp	3	3	4223.10	4180.47	110.98	0.03
	Gene expression data from Line27859 mature green fruit flesh	endocarp	3	3	3834.26	3849.90	201.62	0.05
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	3471.27	3524.37	125.07	0.04
	Gene expression data from Aft red fruit peel	exocarp	3	3	4222.66	4250.98	72.35	0.02
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	3508.87	3478.17	69.65	0.02
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	3455.31	3529.99	209.65	0.06
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	4401.42	4453.07	108.02	0.02
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	3635.10	3635.10	901.26	0.25
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	4272.49	4060.20	897.39	0.21
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	4704.13	4704.13	40.27	0.01
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	4941.65	4923.93	138.91	0.03
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	4312.19	4312.19	56.63	0.01
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	3941.92	3941.92	151.79	0.04
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	4809.55	4800.50	147.51	0.03
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	5190.11	5091.65	207.02	0.04
	Gene expression data from Aft red fruit flesh	mesocarp	3	3	4991.83	4939.00	99.62	0.02
	Gene expression data from Line27859 red fruit flesh	mesocarp	3	3	3932.36	3906.38	132.16	0.03
	Gene expression data from Micro-Tom mature green fruit flesh	mesocarp	3	3	3942.76	3932.63	169.17	0.04
	Gene expression data from Micro-Tom orange fruit flesh	mesocarp	2	2	4393.48	4393.48	198.10	0.05
	Gene expression data from Micro-Tom red fruit flesh	mesocarp	3	3	5202.16	4866.18	600.18	0.12
	Gene expression data from Micro-Tom yellow fruit flesh	mesocarp	2	2	4727.62	4727.62	542.53	0.11
	Gene expression data from Momotaro8 red fruit flesh	mesocarp	4	4	4979.98	5236.52	630.29	0.13
	Gene expression data from Micro-Tom root	root	3	3	6291.25	6474.35	460.69	0.07

Expression Data by Targets (experiment replicates) (67)

Experiment name	Target name	normalized_signal	pVal_call	flag
Gene expression data from Micro-Tom cotyledon	GSM480170 extract 1	3723.5	2e-4	P
	GSM480171 extract 1	4564.76	2e-4	P
Gene expression data from Aft mature green fruit flesh	GSM480202 extract 1	4139.76	2e-4	P
	GSM480200 extract 1	4349.07	2e-4	P
	GSM480201 extract 1	4180.47	2e-4	P
Gene expression data from Line27859 mature green fruit flesh	GSM480214 extract 1	3849.9	2e-4	P
	GSM480212 extract 1	3625.27	2e-4	P
	GSM480213 extract 1	4027.6	2e-4	P
Gene expression data from Aft mature green fruit peel	GSM480208 extract 1	3328.41	2e-4	P
	GSM480206 extract 1	3524.37	2e-4	P
	GSM480207 extract 1	3561.03	2e-4	P
Gene expression data from Aft red fruit peel	GSM480210 extract 1	4250.98	2e-4	P
	GSM480209 extract 1	4140.43	2e-4	P
	GSM480211 extract 1	4276.56	2e-4	P
Gene expression data from Line27859 mature green fruit peel	GSM480219 extract 1	3478.17	2e-4	P
	GSM480218 extract 1	3588.6	2e-4	P
	GSM480220 extract 1	3459.84	2e-4	P
Gene expression data from Line27859 red fruit peel	GSM480222 extract 1	3218.54	2e-4	P
	GSM480221 extract 1	3617.4	2e-4	P
	GSM480223 extract 1	3529.99	2e-4	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480191 extract 1	4277.27	2e-4	P
	GSM480192 extract 1	4473.92	2e-4	P
	GSM480190 extract 1	4453.07	2e-4	P
Gene expression data from Micro-Tom orange fruit peel	GSM480195 extract 1	4272.39	2e-4	P
	GSM480196 extract 1	2997.81	2e-4	P
Gene expression data from Micro-Tom red fruit peel	GSM480199 extract 1	3500.28	2e-4	P
	GSM480198 extract 1	4060.2	2e-4	P
	GSM480197 extract 1	5256.99	2e-4	P
Gene expression data from Micro-Tom yellow fruit peel	GSM480193 extract 1	4675.66	2e-4	P
	GSM480194 extract 1	4732.61	2e-4	P
Gene expression data from Momotaro8 red fruit peel	GSM480228 extract 1	4808.64	2e-4	P
	GSM480229 extract 1	4849.11	2e-4	P
	GSM480230 extract 1	5110.1	2e-4	P
	GSM480231 extract 1	4998.75	2e-4	P
Gene expression data from Micro-Tom hypocotyl	GSM480168 extract 1	4272.15	2e-4	P
	GSM480169 extract 1	4352.24	2e-4	P
Gene expression data from Micro-Tom 3rd leaf	GSM480172 extract 1	4049.25	2e-4	P
	GSM480173 extract 1	3834.59	2e-4	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480175 extract 1	4961.38	2e-4	P
	GSM480174 extract 1	4800.5	2e-4	P
	GSM480176 extract 1	4666.78	2e-4	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480179 extract 1	5050.7	2e-4	P
	GSM480177 extract 1	5091.65	2e-4	P
	GSM480178 extract 1	5427.98	2e-4	P
Gene expression data from Aft red fruit flesh	GSM480205 extract 1	4929.75	2e-4	P
	GSM480203 extract 1	5106.74	2e-4	P
	GSM480204 extract 1	4939	2e-4	P
Gene expression data from Line27859 red fruit flesh	GSM480216 extract 1	3906.38	2e-4	P
	GSM480215 extract 1	3815.12	2e-4	P
	GSM480217 extract 1	4075.59	2e-4	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480180 extract 1	3778.89	2e-4	P
	GSM480182 extract 1	4116.77	2e-4	P
	GSM480181 extract 1	3932.63	2e-4	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480186 extract 1	4253.4	2e-4	P
	GSM480185 extract 1	4533.56	2e-4	P
Gene expression data from Micro-Tom red fruit flesh	GSM480187 extract 1	5895.09	2e-4	P
	GSM480189 extract 1	4866.18	2e-4	P
	GSM480188 extract 1	4845.22	2e-4	P
Gene expression data from Micro-Tom yellow fruit flesh	GSM480183 extract 1	5111.25	2e-4	P
	GSM480184 extract 1	4343.99	2e-4	P
Gene expression data from Momotaro8 red fruit flesh	GSM480225 extract 1	5401.91	2e-4	P
	GSM480224 extract 1	5173.6	2e-4	P
	GSM480227 extract 1	4044.97	2e-4	P
	GSM480226 extract 1	5299.43	2e-4	P
Gene expression data from Micro-Tom root	GSM480165 extract 1	6474.35	2e-4	P
	GSM480166 extract 1	6632.23	2e-4	P
	GSM480167 extract 1	5767.16	2e-4	P

Correlation analysis (0)

No correlation analysis was found associated to this template

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