CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig9001_at

Gene name
Homology with Arabidopsis Similar to At4g08810: SUB1 (HF=3e-3)

Module size 6 genes

NF 0.39

%ile 53.3

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.67 84.7 0.73 Contig9001_at Contig9001 - - 3e-3 At4g08810 SUB1 O.I. H.G. S.X.
0.71 87.1 0.73 Contig9000_at Contig9000 - - 9e+0 At2g21320 zinc finger (B-box type) family protein O.I. H.G. S.X.
0.44 58.9 0.81 Contig9473_at Contig9473 - - 6e-1 At1g70480 unknown protein O.I. H.G. S.X.
0.40 53.1 0.75 Contig5907_at Contig5907 - - 3e-9 At5g06960 OBF5 (OCS-ELEMENT BINDING FACTOR 5) O.I. H.G. S.X.
0.25 28.9 0.73 HD13A06r_at HD13A06r - - 4e+0 At3g43430 zinc finger (C3HC4-type RING finger) family protein O.I. H.G. S.X.
0.15 14.1 0.73 HV_CEa0006I19r2_at HV_CEa0006I19r2 - - 2e-1 At3g60961 ATP binding / nucleobase, nucleoside, nucleotide kinase O.I. H.G. S.X.

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Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
21.8 99.8 GSM238429 Embryo 16DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
14.7 99.5 GSM238428 Embryo 16DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
7.2 98.5 GSM238426 Endosperm 72 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
6.6 98.2 GSM146379 Maythorpe shoot Salt, biological rep 2 GSE6325 Array-based genotyping and expression analysis of barley cv. Maythorpe and Golden Promise
5.9 97.9 GSM282029 Malting_day1_Merit_rep3 GSE11200 Expression data from malting barley seeds
4.8 97.0 GSM238430 Embryo 25DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.3 96.4 GSM282026 Malting_day1_Legacy_rep4 GSE11200 Expression data from malting barley seeds
4.2 96.3 GSM419983 Seed_Rep3 GSE16754 Comparative transcriptional profiling of organs of the barley spike
4.2 96.3 GSM440977 Control seed_Rep3 GSE17669 Gene expression in the barley spike during drought stress
4.2 96.3 GSM282028 Malting_day1_Merit_rep1 GSE11200 Expression data from malting barley seeds

Inter-species module comparison

A co-expression module including the grape gene, 1613013_at, orthologous to the query gene, Contig9001_at

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.88 95.4 1613013_at At4g08810 - - 3e-39 At4g08810 SUB1 O.I. H.G. S.X.
0.46 66.5 1619735_at At4g08810 hypothetical protein LOC100258926 - 1e-34 At2g15430 NRPB3 O.I. H.G. S.X.
0.46 66.5 1613735_at At4g08810 hypothetical protein LOC100264792 - 4e-64 At2g32730 26S proteasome regulatory subunit, putative O.I. H.G. S.X.
0.43 61.5 1617566_at At4g08810 hypothetical protein LOC100247823 - 1e+0 At3g17310 methyltransferase family protein O.I. H.G. S.X.
0.42 60.1 1618841_s_at At4g08810 hypothetical protein LOC100259947 - 1e+0 At4g36791 unknown protein O.I. H.G. S.X.
0.40 57.7 1620466_at At4g08810 hypothetical protein LOC100246357 - 7e-27 At5g56280 CSN6A O.I. H.G. S.X.
0.33 45.7 1614306_at At4g08810 hypothetical protein LOC100265168 - 3e-1 At2g01070 - O.I. H.G. S.X.
0.32 43.1 1617050_at At4g08810 hypothetical protein LOC100249740 - 2e-2 At1g11400 PYM (Partner of Y14-Mago) O.I. H.G. S.X.
0.25 30.5 1617113_at At4g08810 hypothetical protein LOC100257592 - 1e-1 At5g15600 SP1L4 (SPIRAL1-LIKE4) O.I. H.G. S.X.
0.24 28.7 1611967_at At4g08810 hypothetical protein LOC100257282 - 2e+0 At5g46915 transcriptional factor B3 family protein O.I. H.G. S.X.
0.23 27.5 1619938_at At4g08810 hypothetical protein LOC100254408 - 2e-1 At3g51950 zinc finger (CCCH-type) family protein / RNA recognition motif (RRM)-containing protein O.I. H.G. S.X.
0.23 27.5 1607898_at At4g08810 hypothetical protein LOC100263388 - 1e+0 At3g03210 unknown protein O.I. H.G. S.X.
0.20 22.4 1613455_at At4g08810 - - 5e-69 At4g34570 THY-2 (thymidylate synthase 2) O.I. H.G. S.X.
0.18 19.4 1609235_at At4g08810 hypothetical protein LOC100248030 - 1e-1 At5g37370 ATSRL1 O.I. H.G. S.X.
0.14 14.4 1612599_at At4g08810 hypothetical protein LOC100265811 - 3e-4 At2g25720 unknown protein O.I. H.G. S.X.

Select a plant to compare co-expressed genes between species.
Arabidopsis_thaliana
Glycine_max
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Zea_mays

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