Co-expression analysis

Gene ID At1g51710
Gene name UBP6 (UBIQUITIN-SPECIFIC PROTEASE 6)
Module size 5 genes
NF 0.56
%ile 78.1



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



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. O.I. H.G. S.X. Other DB
0.8994.61.00At1g51710841596UBP6 (UBIQUITIN-SPECIFIC PROTEASE 6)Ubiquitin-specific protease 6 (UBP6). Deubiquinating enzyme. Interacts with calmodulin.O.I.H.G.S.X.
0.6781.60.93At1g51510841576Y14This gene is predicted to encode a protein involved in the exon junction complex. Though there is a predicted RNA binding motif, in the Drosophila ortholog (33% identity), this motif mediates interactions with Mago and is not available for RNA binding. The Arabidopsis Y14 protein appears to be predominantly nucleolar, but there is also some evidence for its presence in the cytoplasm.O.I.H.G.S.X.
0.5065.30.93At2g45240819132MAP1A (METHIONINE AMINOPEPTIDASE 1A)Encodes a cytoplasmic MAP1 like methionine aminopeptidase which is involved in removing the N-terminal methionine from proteins. Induced mutants using RNAi technology which knocks out both MAP1 and MAP2 like genes show abnormal development.O.I.H.G.S.X.
0.4659.80.93At1g43860840982transcription factorF:transcription factor activity;P:regulation of transcription;C:unknown;MOFAPBO.I.H.G.S.X.
0.3338.10.93At5g25780832647EIF3B-2 (EUKARYOTIC TRANSLATION INITIATION FACTOR 3B-2)member of eIF3b - eukaryotic initiation factor 3bO.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
53.999.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
36.399.7E-ATMX-35-raw-cel-1574334816
34.699.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
32.699.7E-ATMX-35-raw-cel-1574334800
26.899.7E-ATMX-35-raw-cel-1574334832
22.199.6GSM265423Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
17.099.5GSM184911Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
16.899.5GSM265430Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
12.999.3E-MEXP-807-raw-cel-1173273196
12.699.3GSM265431Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
12.199.3E-MEXP-807-raw-cel-1173273088
11.899.3E-TABM-52-raw-cel-1583683022
10.499.2GSM184910Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.899.1GSM133962Fukuda_1-7_6A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
9.699.1GSM142634MC002_ATH1_A4.3-dubos-6kcGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
9.599.1GSM75519slr-1 0h NAA replicate 2GSE3350SLR/IAA14-dependent auxin induced lateral root initiationLink to GEO
9.499.1GSM184921Arabidopsis, root cells, stele, 140 mM NaCls, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.399.1GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.299.1GSM265413Arabidopsis, whole roots, -Fe, replicate 3GSE10496Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)Link to GEO
9.299.1E-MEXP-807-raw-cel-1173273116
9.099.1GSM179960Arabidopsis roots, ethylene treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
8.999.0GSM179969Arabidopsis aux1 mutant roots, ethylene treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
8.799.0GSM133963Fukuda_1-8_6B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
8.799.0E-MEXP-739-raw-cel-1099467303
8.799.0GSM265412Arabidopsis, whole roots, -Fe, replicate 2GSE10496Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0016579The removal of one or more ubiquitin moieties from a protein.Link to AmiGO
0.2001GO:0016485The posttranslational modification, which may include cleavage of peptide bonds, of a protein, leading to the attainment of the full functional capacity of the protein. Protein processing particularly affects secretory proteins and proteins targeted for membranes or specific cellular locations.Link to AmiGO
0.2001GO:0031365The alteration of the N-terminal amino acid residue in a protein.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

Inter-species module comparison

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



Back to the CoP portal site

Back to the KAGIANA project homepage