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Expression Template: Les.4597.1.S1_at

Template Basic Information

Template name:	Les.4597.1.S1_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	SGN-U566334
External db links:	GenBank: BT012921.1

Annotations for unigene SGN-U566334 (manual: 1 | blast: 3 | go: 9 )

Manual annotations

Based on clone cLEF-49-B19, annotated by Rob Alba	Created 2003-01-20, last modified 2003-01-20
Putative Homology: RAD51B Annotation Keywords: nucleic acid metabolism; DNA metabolism; DNA repair

Blast Annotations [Show All]

Database	Program	Best Match	Score	E-value	Identity	Alignment Length	Frame
genbank	blastx	gi\|79323389\|ref\|NP_001031438.1\|	487	1e-135	67.95	1095 bp (73.2%)	1
Description:	RAD51B; recombinase [Arabidopsis thaliana] >gi83305358\|sp\|Q9SK02.2\|RA51B_ARATH RecName: Full=DN&hellip
arabidopsis	blastx	At2G28560.2	487	7e-138	67.95	1095 bp (73.2%)	1
Description:	Symbols: ATRAD51B, RAD51B \| ATRAD51B/RAD51B \| chr2:12243953-12246163 REVERSE
swissprot	blastx	Q9SK02	487	6e-137	67.95	1095 bp (73.2%)	1
Description:	DNA repair protein RAD51 homolog 2 OS=Arabidopsis thaliana GN=RAD51B PE=2 SV=2

GO Terms Annotations

GO:0003684damaged DNA binding
GO:0000166nucleotide binding
GO:0003677DNA binding
GO:0005524ATP binding
GO:0008094DNA-dependent ATPase activity
GO:0006310DNA recombination
GO:0006281DNA repair
GO:0017111nucleoside-triphosphatase activity
GO:0006259DNA metabolism

Probe Composition (11)

Probe name	Probe type	Template start coord	Template end coord	Spots
Les.4597.1.S1_at:ProbePair0	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair1	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair10	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair2	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair3	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair4	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair5	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair6	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair7	PM	data not available	data not available	data not available
Les.4597.1.S1_at:ProbePair8	PM	data not available	data not available	data not available
Les.4597.1.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	37.98	37.98	7.55	0.20
	Gene expression data from Line27859 red fruit flesh	endocarp	3	3	100.59	99.57	22.13	0.22
	Gene expression data from Micro-Tom mature green fruit flesh	endocarp	3	3	43.04	44.45	6.94	0.16
	Gene expression data from Micro-Tom yellow fruit flesh	endocarp	2	2	24.71	24.71	5.97	0.24
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	59.56	57.88	7.10	0.12
	Gene expression data from Aft red fruit peel	exocarp	3	3	64.47	64.79	7.74	0.12
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	43.29	43.61	1.09	0.03
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	69.69	70.60	3.99	0.06
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	25.97	31.31	11.82	0.46
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	32.15	32.15	12.50	0.39
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	36.91	32.88	9.40	0.25
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	21.80	21.80	0.93	0.04
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	43.55	39.34	15.53	0.36
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	53.87	53.87	1.61	0.03
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	44.11	44.11	4.53	0.10
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	57.21	49.26	16.06	0.28
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	46.61	38.06	15.36	0.33
	Gene expression data from Aft mature green fruit flesh	mesocarp	3	3	66.23	64.13	11.45	0.17
	Gene expression data from Aft red fruit flesh	mesocarp	3	3	50.50	50.98	4.50	0.09
	Gene expression data from Line27859 mature green fruit flesh	mesocarp	3	3	46.80	49.15	4.25	0.09
	Gene expression data from Micro-Tom orange fruit flesh	mesocarp	2	2	25.63	25.63	7.71	0.30
	Gene expression data from Micro-Tom red fruit flesh	mesocarp	3	3	34.07	32.10	6.98	0.20
	Gene expression data from Momotaro8 red fruit flesh	mesocarp	4	4	42.58	33.17	23.00	0.54
	Gene expression data from Micro-Tom root	root	3	3	33.97	29.69	9.99	0.29

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	43.3237	7e-4	P
	GSM480171 extract 1	32.6438	0.001	P
Gene expression data from Line27859 red fruit flesh	GSM480216 extract 1	78.9849	2e-4	P
	GSM480215 extract 1	123.217	2e-4	P
	GSM480217 extract 1	99.5663	0.001	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480180 extract 1	35.5062	7e-4	P
	GSM480182 extract 1	44.4463	7e-4	P
	GSM480181 extract 1	49.1709	2e-4	P
Gene expression data from Micro-Tom yellow fruit flesh	GSM480183 extract 1	20.4853	2e-4	P
	GSM480184 extract 1	28.9336	2e-4	P
Gene expression data from Aft mature green fruit peel	GSM480206 extract 1	57.8757	7e-4	P
	GSM480207 extract 1	67.3505	2e-4	P
	GSM480208 extract 1	53.4622	2e-4	P
Gene expression data from Aft red fruit peel	GSM480211 extract 1	64.7929	2e-4	P
	GSM480209 extract 1	72.0412	2e-4	P
	GSM480210 extract 1	56.5643	2e-4	P
Gene expression data from Line27859 mature green fruit peel	GSM480219 extract 1	43.6084	2e-4	P
	GSM480218 extract 1	42.0753	2e-4	P
	GSM480220 extract 1	44.1726	7e-4	P
Gene expression data from Line27859 red fruit peel	GSM480223 extract 1	70.6013	2e-4	P
	GSM480221 extract 1	65.3256	2e-4	P
	GSM480222 extract 1	73.1467	2e-4	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480190 extract 1	12.429	0.150	A
	GSM480192 extract 1	34.1863	0.001	P
	GSM480191 extract 1	31.3084	7e-4	P
Gene expression data from Micro-Tom orange fruit peel	GSM480195 extract 1	40.9932	7e-4	P
	GSM480196 extract 1	23.3098	0.014	P
Gene expression data from Micro-Tom red fruit peel	GSM480197 extract 1	47.6579	2e-4	P
	GSM480198 extract 1	30.2025	0.003	P
	GSM480199 extract 1	32.8768	0.002	P
Gene expression data from Micro-Tom yellow fruit peel	GSM480193 extract 1	22.4521	0.003	P
	GSM480194 extract 1	21.1416	2e-4	P
Gene expression data from Momotaro8 red fruit peel	GSM480228 extract 1	30.3163	0.001	P
	GSM480229 extract 1	44.0247	0.019	P
	GSM480230 extract 1	34.6453	2e-4	P
	GSM480231 extract 1	65.212	2e-4	P
Gene expression data from Micro-Tom hypocotyl	GSM480168 extract 1	52.7364	2e-4	P
	GSM480169 extract 1	55.0114	2e-4	P
Gene expression data from Micro-Tom 3rd leaf	GSM480173 extract 1	47.3176	7e-4	P
	GSM480172 extract 1	40.9114	2e-4	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480174 extract 1	49.2599	0.001	P
	GSM480176 extract 1	46.6654	7e-4	P
	GSM480175 extract 1	75.6923	0.003	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480178 extract 1	38.0587	2e-4	P
	GSM480177 extract 1	37.4207	0.006	P
	GSM480179 extract 1	64.3444	7e-4	P
Gene expression data from Aft mature green fruit flesh	GSM480202 extract 1	55.9838	2e-4	P
	GSM480200 extract 1	64.1322	2e-4	P
	GSM480201 extract 1	78.5865	2e-4	P
Gene expression data from Aft red fruit flesh	GSM480203 extract 1	45.769	2e-4	P
	GSM480204 extract 1	50.985	7e-4	P
	GSM480205 extract 1	54.7341	7e-4	P
Gene expression data from Line27859 mature green fruit flesh	GSM480212 extract 1	41.8928	0.019	P
	GSM480213 extract 1	49.1451	2e-4	P
	GSM480214 extract 1	49.3496	7e-4	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480185 extract 1	31.0858	2e-4	P
	GSM480186 extract 1	20.1825	2e-4	P
Gene expression data from Micro-Tom red fruit flesh	GSM480187 extract 1	28.283	0.004	P
	GSM480188 extract 1	41.8211	0.001	P
	GSM480189 extract 1	32.0986	0.004	P
Gene expression data from Momotaro8 red fruit flesh	GSM480225 extract 1	33.3463	0.014	P
	GSM480224 extract 1	32.9909	2e-4	P
	GSM480226 extract 1	27.1673	2e-4	P
	GSM480227 extract 1	76.8207	2e-4	P
Gene expression data from Micro-Tom root	GSM480166 extract 1	26.8273	7e-4	P
	GSM480165 extract 1	45.3864	0.006	P
	GSM480167 extract 1	29.694	2e-4	P

Correlation analysis (0)

No correlation analysis was found associated to this template

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