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Expression Template: Les.3127.1.S1_a_at

Template Basic Information

Template name:	Les.3127.1.S1_a_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	SGN-U577517
External db links:	GenBank: AW092318

Annotations for unigene SGN-U577517 (manual: 1 | blast: 3 | go: 0 )

Manual annotations

Based on clone cLER-15-G4, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: "serine hydroxymethyltransferase, mitochondrial" Annotation Keywords: amino acid metabolism; serine metabolism; glycine biosynthesis

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|1707998\|sp\|P50433\|GLYM_SOLTU	229	8e-59	98.47	393 bp (65.5%)	-3
Description:	gi\|1707998\|sp\|P50433\|GLYM_SOLTU SERINE HYDROXYMETHYLTRANSFERASE, MITOCHONDRIAL PRECURSOR (SERIN&hellip
arabidopsis	blastx	At4G37930.1	206	6e-54	84.73	393 bp (65.5%)	-3
Description:	Symbols: STM, SHMT1, SHM1 \| SHM1 (SERINE HYDROXYMETHYLTRANSFERASE 1); glycine hydroxymethyltra&hellip
swissprot	blastx	P50433	229	6e-60	98.47	393 bp (65.5%)	-3
Description:	Serine hydroxymethyltransferase, mitochondrial OS=Solanum tuberosum PE=2 SV=1

GO Terms Annotations

No Gene Ontology annotation

Probe Composition (8)

Probe name	Probe type	Template start coord	Template end coord	Spots
Les.3127.1.S1_a_at:ProbePair0	PM	data not available	data not available	data not available
Les.3127.1.S1_a_at:ProbePair1	PM	data not available	data not available	data not available
Les.3127.1.S1_a_at:ProbePair2	PM	data not available	data not available	data not available
Les.3127.1.S1_a_at:ProbePair3	PM	data not available	data not available	data not available
Les.3127.1.S1_a_at:ProbePair4	PM	data not available	data not available	data not available
Les.3127.1.S1_a_at:ProbePair5	PM	data not available	data not available	data not available
Les.3127.1.S1_a_at:ProbePair6	PM	data not available	data not available	data not available
Les.3127.1.S1_a_at:ProbePair7	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	7072.88	7072.88	2158.58	0.31
	Gene expression data from Aft red fruit flesh	endocarp	3	3	89.98	74.38	46.10	0.51
	Gene expression data from Line27859 red fruit flesh	endocarp	3	3	175.38	168.47	48.17	0.27
	Gene expression data from Micro-Tom mature green fruit flesh	endocarp	3	3	1156.55	981.53	531.53	0.46
	Gene expression data from Micro-Tom yellow fruit flesh	endocarp	2	2	195.74	195.74	53.10	0.27
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	3053.91	3051.88	37.31	0.01
	Gene expression data from Aft red fruit peel	exocarp	3	3	55.84	59.15	19.03	0.34
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	5427.39	5445.74	323.23	0.06
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	242.63	243.20	32.86	0.14
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	446.63	323.95	229.49	0.51
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	49.78	49.78	17.00	0.34
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	37.63	29.23	15.32	0.41
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	49.06	49.06	13.78	0.28
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	467.97	316.86	367.94	0.79
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	1028.09	1028.09	614.86	0.60
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	6789.79	6789.79	161.93	0.02
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	7120.02	6967.21	831.82	0.12
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	6830.52	6665.04	627.76	0.09
	Gene expression data from Aft mature green fruit flesh	mesocarp	3	3	1750.16	1603.17	303.81	0.17
	Gene expression data from Line27859 mature green fruit flesh	mesocarp	3	3	6495.79	6531.35	62.22	0.01
	Gene expression data from Micro-Tom orange fruit flesh	mesocarp	2	2	26.77	26.77	0.36	0.01
	Gene expression data from Micro-Tom red fruit flesh	mesocarp	3	3	5.40	5.81	3.30	0.61
	Gene expression data from Momotaro8 red fruit flesh	mesocarp	4	4	165.70	79.18	199.14	1.20
	Gene expression data from Micro-Tom root	root	3	3	12.28	10.32	5.06	0.41

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	8599.22	0.002	P
	GSM480170 extract 1	5546.53	0.002	P
Gene expression data from Aft red fruit flesh	GSM480203 extract 1	141.853	0.002	P
	GSM480205 extract 1	74.3838	0.002	P
	GSM480204 extract 1	53.6924	0.002	P
Gene expression data from Line27859 red fruit flesh	GSM480215 extract 1	226.634	0.002	P
	GSM480216 extract 1	168.469	0.002	P
	GSM480217 extract 1	131.035	0.002	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480182 extract 1	981.533	0.002	P
	GSM480180 extract 1	1753.51	0.002	P
	GSM480181 extract 1	734.594	0.002	P
Gene expression data from Micro-Tom yellow fruit flesh	GSM480184 extract 1	233.282	0.002	P
	GSM480183 extract 1	158.189	0.002	P
Gene expression data from Aft mature green fruit peel	GSM480206 extract 1	3092.2	0.002	P
	GSM480207 extract 1	3051.88	0.002	P
	GSM480208 extract 1	3017.66	0.002	P
Gene expression data from Aft red fruit peel	GSM480211 extract 1	35.3719	0.002	P
	GSM480209 extract 1	73.0071	0.002	P
	GSM480210 extract 1	59.1483	0.002	P
Gene expression data from Line27859 mature green fruit peel	GSM480218 extract 1	5741.06	0.002	P
	GSM480219 extract 1	5095.38	0.002	P
	GSM480220 extract 1	5445.74	0.002	P
Gene expression data from Line27859 red fruit peel	GSM480221 extract 1	209.489	0.002	P
	GSM480223 extract 1	275.192	0.002	P
	GSM480222 extract 1	243.203	0.002	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480191 extract 1	304.559	0.002	P
	GSM480190 extract 1	711.388	0.002	P
	GSM480192 extract 1	323.951	0.002	P
Gene expression data from Micro-Tom orange fruit peel	GSM480195 extract 1	37.7536	0.010	P
	GSM480196 extract 1	61.7968	0.006	P
Gene expression data from Micro-Tom red fruit peel	GSM480197 extract 1	28.3492	0.016	P
	GSM480198 extract 1	29.2318	0.006	P
	GSM480199 extract 1	55.3192	0.002	P
Gene expression data from Micro-Tom yellow fruit peel	GSM480193 extract 1	39.3196	0.002	P
	GSM480194 extract 1	58.8032	0.006	P
Gene expression data from Momotaro8 red fruit peel	GSM480230 extract 1	314.128	0.002	P
	GSM480228 extract 1	319.597	0.002	P
	GSM480229 extract 1	222.337	0.002	P
	GSM480231 extract 1	1015.81	0.002	P
Gene expression data from Micro-Tom hypocotyl	GSM480168 extract 1	593.318	0.002	P
	GSM480169 extract 1	1462.86	0.002	P
Gene expression data from Micro-Tom 3rd leaf	GSM480173 extract 1	6675.29	0.002	P
	GSM480172 extract 1	6904.29	0.002	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480174 extract 1	6375.21	0.002	P
	GSM480175 extract 1	6967.21	0.002	P
	GSM480176 extract 1	8017.65	0.002	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480177 extract 1	7524.45	0.002	P
	GSM480178 extract 1	6665.04	0.002	P
	GSM480179 extract 1	6302.08	0.002	P
Gene expression data from Aft mature green fruit flesh	GSM480200 extract 1	2099.51	0.002	P
	GSM480202 extract 1	1603.17	0.002	P
	GSM480201 extract 1	1547.8	0.002	P
Gene expression data from Line27859 mature green fruit flesh	GSM480212 extract 1	6531.35	0.002	P
	GSM480214 extract 1	6532.08	0.002	P
	GSM480213 extract 1	6423.94	0.002	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480185 extract 1	26.5127	0.023	P
	GSM480186 extract 1	27.0202	0.064	M
Gene expression data from Micro-Tom red fruit flesh	GSM480187 extract 1	1.90888	0.789	A
	GSM480189 extract 1	5.81395	0.447	A
	GSM480188 extract 1	8.47725	0.346	A
Gene expression data from Momotaro8 red fruit flesh	GSM480225 extract 1	53.8767	0.006	P
	GSM480224 extract 1	42.7658	0.002	P
	GSM480226 extract 1	104.493	0.002	P
	GSM480227 extract 1	461.683	0.002	P
Gene expression data from Micro-Tom root	GSM480165 extract 1	10.3236	0.447	A
	GSM480166 extract 1	8.49014	0.334	A
	GSM480167 extract 1	18.0258	0.023	P

Correlation analysis (0)

No correlation analysis was found associated to this template

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