CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig12434_at

Gene name
Homology with Arabidopsis Similar to At4g30930: NFD1 (NUCLEAR FUSION DEFECTIVE 1) (HF=2e-6)

Module size 6 genes

NF 0.65

%ile 86.6

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
0.61 78.7 0.96 Contig12434_at Contig12434 - - 2e-6 At4g30930 NFD1 (NUCLEAR FUSION DEFECTIVE 1) O.I. H.G. S.X.
0.71 87.1 0.96 Contig13988_at Contig13988 - - 5e-4 At4g24020 NLP7 (NIN LIKE PROTEIN 7) O.I. H.G. S.X.
0.67 84.7 0.96 Contig1056_s_at Contig1056 - - 5e-140 At4g05050 UBQ11 (UBIQUITIN 11) O.I. H.G. S.X.
0.60 77.3 0.97 Contig13783_at Contig13783 - - 4e-1 At2g41225 unknown protein O.I. H.G. S.X.
0.50 66.9 0.96 Contig6826_s_at Contig6826 - - 8e-1 At2g15535 LCR10 (Low-molecular-weight cysteine-rich 10) O.I. H.G. S.X.
0.43 56.4 0.96 Contig9200_at Contig9200 - - 6e-1 At5g10230 ANNAT7 (ANNEXIN ARABIDOPSIS 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
8.8 98.9 GSM382232 Root_Hg1 GSE15295 Mercury toxicity in barley roots
8.6 98.8 GSM215732 gibberellin plus Yariv-reagent treatment rep2 GSE8712 The effects of Yariv-reagent on barley aleurone GA signaling
8.3 98.8 GSM261045 after 3 days in mannitol medium rep1 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
6.7 98.3 GSM261046 after 3 days in mannitol medium rep2 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
6.2 98.0 GSM431546 pathogen isolates: Mock - rep1 GSE17238 Response of barley roots during the host interaction with the plasmodiophorid virus vector Polymyxa graminis
5.8 97.8 GSM382234 Root_Hg3 GSE15295 Mercury toxicity in barley roots
5.7 97.7 GSM382235 Root_Control1 GSE15295 Mercury toxicity in barley roots
5.4 97.5 GSM215729 gibberellin plus Yariv-reagent treatment rep1 GSE8712 The effects of Yariv-reagent on barley aleurone GA signaling
5.1 97.3 GSM382233 Root_Hg2 GSE15295 Mercury toxicity in barley roots
4.8 97.0 GSM382236 Root_Control2 GSE15295 Mercury toxicity in barley roots

Inter-species module comparison

A co-expression module including the rice gene, Os05g0557800, orthologous to the query gene, Contig12434_at

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.67 87.2 Os05g0557800 At4g30930 - Ribosomal protein L21 family protein 7e-10 At4g30930 NFD1 (NUCLEAR FUSION DEFECTIVE 1) O.I. H.G. S.X.
0.64 83.4 Os03g0240800 At4g30930 - Small nuclear ribonucleoprotein Sm D3 (snRNP coreprotein D3) (Sm-D3) 3e-8 At1g20580 small nuclear ribonucleoprotein, putative / snRNP, putative / Sm protein, putative O.I. H.G. S.X.
0.53 71.3 Os03g0355800 At4g30930 - Diphthine synthase (EC 2.1.1.98) (Diphthamidebiosynthesis methyltransferase) 3e-3 At4g31790 diphthine synthase, putative (DPH5) O.I. H.G. S.X.
0.53 71.3 Os02g0312700 At4g30930 - Conserved hypothetical protein 9e-3 At2g34050 - O.I. H.G. S.X.
0.52 69.6 Os11g0139100 At4g30930 - 50S ribosomal protein L24 7e-6 At5g23535 KOW domain-containing protein O.I. H.G. S.X.
0.46 60.9 Os11g0585700 At4g30930 - 50S ribosomal protein L4 2e-10 At2g20060 ribosomal protein L4 family protein O.I. H.G. S.X.
0.36 44.0 Os03g0802700 At4g30930 - RH27 helicase (Fragment) 2e-2 At5g65900 DEAD/DEAH box helicase, putative O.I. H.G. S.X.
0.35 41.7 Os02g0167700 At4g30930 - TBP-interacting 120 family protein 6e-38 At2g02560 CAND1 (CULLIN-ASSOCIATED AND NEDDYLATION DISSOCIATED) O.I. H.G. S.X.

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

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