CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID PtpAffx.79743.1.S1_at

Gene name hypothetical protein
Homology with Arabidopsis Similar to At5g11260: HY5 (ELONGATED HYPOCOTYL 5) (HF=4e-38)

Module size 6 genes

NF 0.23

%ile 41.5

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
0.83 97.0 0.79 PtpAffx.79743.1.S1_at CK095368 hypothetical protein - 4e-38 At5g11260 HY5 (ELONGATED HYPOCOTYL 5) O.I. H.G. S.X.
0.55 82.2 0.81 PtpAffx.9216.1.S1_at CK090745 ABC transporter family protein /// ABC transporter family protein - 3e-89 At5g02270 ATNAP9 O.I. H.G. S.X.
0.33 57.5 0.83 PtpAffx.9216.2.S1_a_at CV257352 ABC transporter family protein - 2e-5 At5g02270 ATNAP9 O.I. H.G. S.X.
0.20 34.6 0.82 PtpAffx.75758.2.A1_s_at CV234605 ABC transporter family protein /// ABC transporter family protein - 6e-62 At1g03905 ABC transporter family protein O.I. H.G. S.X.
0.19 32.7 0.83 PtpAffx.214190.1.S1_at pmrna27608 hypothetical protein - 1e+1 At5g03330 OTU-like cysteine protease family protein O.I. H.G. S.X.
0.05 8.3 0.82 PtpAffx.213475.1.S1_at pmrna26347 AP2 domain-containing transcription factor /// AP2 domain-containing transcription factor - 7e-1 At3g52440 Dof-type zinc finger domain-containing protein 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
12.9 99.3 GSM327397 Populus balsamifera_20071015_Etiolated_seedling_6d_transfered_to_light_3h_2 GSE13990 Populus balsamifera developmental tissue series
4.9 96.5 GSM327398 Populus balsamifera_20071015_Etiolated_seedling_6d_transfered_to_light_3h_3 GSE13990 Populus balsamifera developmental tissue series
4.7 96.3 GSM327661 Populus balsamifera_Male_Catkin_midday_3 GSE13990 Populus balsamifera developmental tissue series
4.5 96.1 GSM327660 Populus balsamifera_Male_Catkin_midday_2 GSE13990 Populus balsamifera developmental tissue series
4.0 95.3 GSM327658 Populus balsamifera_Female_Catkin_midday_3 GSE13990 Populus balsamifera developmental tissue series
3.3 93.7 GSM327659 Populus balsamifera_Male_Catkin_midday_1 GSE13990 Populus balsamifera developmental tissue series
3.2 93.5 GSM327380 Populus balsamifera_20071015_Etiolated_seedling_6d_transfered_to_light_3h_1 GSE13990 Populus balsamifera developmental tissue series
2.6 91.3 GSM244431 non infected tissue, biological rep2 GSE9673 Comparative transcriptomic reveals signatures specific to various interactions with Melampsora rust fungi
2.4 90.4 GSM327656 Populus balsamifera_Female_Catkin_midday_1 GSE13990 Populus balsamifera developmental tissue series
2.3 89.8 GSM136938 Poplar contacted with P. aeruginosa PAO1 in 1 x hrp + 0.25 % sucrose GSE5887 Pseudomonas aeruginosa PAO1 virulent genes in the poplar rhizosphere

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At5g11260, orthologous to the query gene, PtpAffx.79743.1.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.33 38.1 At5g11260 830996 HY5 (ELONGATED HYPOCOTYL 5) Basic leucine zipper (bZIP) transcription factor. Nuclear localization. Involved in light-regulated transcriptional activation of G-box-containing promoters. Negatively regulated by Cop1. Although cytokinins do not appear to affect the gene's promoter activity, they appear to stabilize the protein. HY5 plays a role in anthocyanin accumulation in far-red light and blue light, but not in red light or in the dark. Mutant studies showed that the gene product is involved in the positive regulation of the PHYA-mediated inhibition of hypocotyl elongation. Binds to G- and Z-boxes, and other ACEs, but not to E-box. Loss of function mutation shows ABA resistant seedling phenotypes suggesting involvement for HY5 in mediating ABA responses. Binds to the promoter of ABI5 and regulates its expression. O.I. H.G. S.X.
0.33 38.1 At1g15100 838073 RHA2A Encodes a putative RING-H2 finger protein RHA2a. O.I. H.G. S.X.
0.33 38.1 At3g02910 821189 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPBOA O.I. H.G. S.X.
0.29 30.3 At1g67030 843022 ZFP6 (ZINC FINGER PROTEIN 6) Encodes a zinc finger protein containing only a single zinc finger. O.I. H.G. S.X.
0.13 5.8 At3g54990 824664 SMZ (SCHLAFMUTZE) Encodes a AP2 domain transcription factor that can repress flowering. SMZ and its paralogous gene, SNARCHZAPFEN (SNZ), share a signature with partial complementarity to the miR172 microRNA, whose precursor is induced upon flowering. O.I. H.G. S.X.
0.10 3.4 At1g13670 837928 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.

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

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