CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig9642_at

Gene name
Homology with Arabidopsis Similar to At4g27960: UBC9 (UBIQUITIN CONJUGATING ENZYME 9) (HF=1e-13)

Module size 6 genes

NF 0.56

%ile 77.1

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
0.50 66.9 0.95 Contig9642_at Contig9642 - - 1e-13 At4g27960 UBC9 (UBIQUITIN CONJUGATING ENZYME 9) O.I. H.G. S.X.
0.71 87.1 0.96 Contig9200_at Contig9200 - - 6e-1 At5g10230 ANNAT7 (ANNEXIN ARABIDOPSIS 7) O.I. H.G. S.X.
0.61 78.7 0.96 Contig1056_s_at Contig1056 - - 5e-140 At4g05050 UBQ11 (UBIQUITIN 11) O.I. H.G. S.X.
0.46 61.0 0.96 Contig6616_at Contig6616 - - 1e-57 At4g35260 IDH1 (ISOCITRATE DEHYDROGENASE 1) O.I. H.G. S.X.
0.46 61.0 0.96 Contig12434_at Contig12434 - - 2e-6 At4g30930 NFD1 (NUCLEAR FUSION DEFECTIVE 1) O.I. H.G. S.X.
0.44 58.9 0.95 Contig13988_at Contig13988 - - 5e-4 At4g24020 NLP7 (NIN LIKE PROTEIN 7) O.I. H.G. S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
9.5 99.0 GSM261045 after 3 days in mannitol medium rep1 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
8.4 98.8 GSM215732 gibberellin plus Yariv-reagent treatment rep2 GSE8712 The effects of Yariv-reagent on barley aleurone GA signaling
7.5 98.6 GSM419980 Awn_Rep3 GSE16754 Comparative transcriptional profiling of organs of the barley spike
7.5 98.6 GSM440971 Control awn_Rep3 GSE17669 Gene expression in the barley spike during drought stress
7.5 98.6 GSM261046 after 3 days in mannitol medium rep2 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
6.3 98.1 GSM419979 Awn_Rep2 GSE16754 Comparative transcriptional profiling of organs of the barley spike
6.3 98.1 GSM440970 Control awn_Rep2 GSE17669 Gene expression in the barley spike during drought stress
6.1 98.0 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 GSM419978 Awn_Rep1 GSE16754 Comparative transcriptional profiling of organs of the barley spike
5.9 97.9 GSM440969 Control awn_Rep1 GSE17669 Gene expression in the barley spike during drought stress

Inter-species module comparison

A co-expression module including the grape gene, 1610321_s_at, orthologous to the query gene, Contig9642_at

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.50 72.7 1610321_s_at At4g27960 hypothetical protein LOC100251531 - 9e-55 At1g64230 ubiquitin-conjugating enzyme, putative O.I. H.G. S.X.
0.80 93.6 1615468_s_at At4g27960 similar to UBC9 (UBIQUITIN CONJUGATING ENZYME 9); ubiquitin-protein ligase - 8e-50 At5g41700 UBC8 (UBIQUITIN CONJUGATING ENZYME 8) O.I. H.G. S.X.
0.67 87.9 1608723_at At4g27960 hypothetical protein LOC100261604 - 3e-5 At5g22040 - O.I. H.G. S.X.
0.63 84.3 1613658_at At4g27960 hypothetical protein LOC100244785 - 4e-4 At2g02970 nucleoside phosphatase family protein / GDA1/CD39 family protein O.I. H.G. S.X.
0.47 67.7 1610822_at At4g27960 hypothetical protein LOC100251604 - 1e-3 At4g17720 RNA recognition motif (RRM)-containing protein O.I. H.G. S.X.
0.43 61.5 1622597_at At4g27960 hypothetical protein LOC100244242 - 1e-4 At3g43520 unknown protein O.I. H.G. S.X.
0.41 58.7 1620253_at At4g27960 hypothetical protein LOC100259757 - 0 At3g05530 RPT5A (REGULATORY PARTICLE TRIPLE-A ATPASE 5A) O.I. H.G. S.X.
0.40 57.7 1618305_at At4g27960 hypothetical protein LOC100256855 - 3e-73 At2g26990 FUS12 (FUSCA 12) 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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