Co-expression analysis

Gene ID Contig223_s_at
Gene name
Homology with ArabidopsisSimilar to At5g56900: CwfJ-like family protein / zinc finger (CCCH-type) family protein (HF=8e-1)
Module size 6 genes
NF 0.46
%ile 64.2

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.EvAGI codeArabidopsis gene name O.I. H.G. S.X. Other DB
0.5369.70.91Contig223_s_atContig223--8e-1At5g56900CwfJ-like family protein / zinc finger (CCCH-type) family proteinO.I.H.G.S.X.
0.6784.70.93HO15C14S_s_atHO15C14S--2e+0At5g55210unknown proteinO.I.H.G.S.X.
0.6784.70.93baak1o23_s_atbaak1o23--1e+1At4g18070unknown proteinO.I.H.G.S.X.
0.6077.30.91Contig10887_atContig10887--3e-10At1g53390ATPase, coupled to transmembrane movement of substancesO.I.H.G.S.X.
0.4356.40.93HVSMEh0085G19f_atHVSMEh0085G19f--3e+0At1g75510transcription initiation factor IIF beta subunit (TFIIF-beta) family proteinO.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
30.099.9GSM215731gibberellin treatment rep2GSE8712The effects of Yariv-reagent on barley aleurone GA signalingLink to GEO
21.099.7GSM382237Root_Control3GSE15295Mercury toxicity in barley rootsLink to GEO
15.099.5GSM372984genotype: 11542 - pathogen isolates: 5874 - time: 20 - rep2GSE14930Comparison of wild-type and cell death mutant of barley plants containing Mla6 powdery mildew resistance geneLink to GEO
14.099.5GSM261042before 3 days in mannitol medium rep1GSE10330Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesisLink to GEO
9.399.0GSM215728gibberellin treatment rep1GSE8712The effects of Yariv-reagent on barley aleurone GA signalingLink to GEO
8.598.8GSM372987genotype: 11542 - pathogen isolates: 5874 - time: 24 - rep2GSE14930Comparison of wild-type and cell death mutant of barley plants containing Mla6 powdery mildew resistance geneLink to GEO
7.198.4GSM215732gibberellin plus Yariv-reagent treatment rep2GSE8712The effects of Yariv-reagent on barley aleurone GA signalingLink to GEO
6.598.2GSM372988genotype: 11542 - pathogen isolates: 5874 - time: 24 - rep3GSE14930Comparison of wild-type and cell death mutant of barley plants containing Mla6 powdery mildew resistance geneLink to GEO
6.598.2GSM372981genotype: 11542 - pathogen isolates: 5874 - time: 16 - rep2GSE14930Comparison of wild-type and cell death mutant of barley plants containing Mla6 powdery mildew resistance geneLink to GEO
5.897.8GSM372982genotype: 11542 - pathogen isolates: 5874 - time: 16 - rep3GSE14930Comparison of wild-type and cell death mutant of barley plants containing Mla6 powdery mildew resistance geneLink to GEO

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At5g56900, orthologous to the query gene, Contig223_s_at

VF%ileGene IDRepr. IDGene NameFunc.O.I.H.G.S.X.Other DB
1.00100.0At5g56900835792CwfJ-like family protein / zinc finger (CCCH-type) family proteinF:zinc ion binding, catalytic activity, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.4355.3At3g09880820146ATB' BETAEncodes B' regulatory subunit of PP2A (AtB'beta).O.I.H.G.S.X.
0.4152.4At1g06630837172-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.4050.8At1g14510838013AL7 (ALFIN-LIKE 7)AL7 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA.O.I.H.G.S.X.
0.4050.8At5g13570831201DCP2 (DECAPPING 2)Encodes DCP2 with mRNA decapping activity. DCP2 forms a mRNA decapping complex with DCP1 (At1g08370) and VCS (VARICOSE) (At3g13300). Recombinant DCP2 is enzymatically active in vitro, generating from capped mRNAs m7GDP, and 5’-phosphorylated mRNAs. DCP1, DCP2 and VCS colocalize in cytoplasmic loci, which are putative Arabidopsis mRNA processing bodies. Null mutants of DCP1, DCP2, and VCS accumulate capped mRNAs with a reduced degradation rate. These mutants also share a similar lethal phenotype at the seedling cotyledon stage, with disorganized veins, swollen root hairs, and altered epidermal cell morphology. The protein was shown by immunoprecipitation not to interact with DCP1.O.I.H.G.S.X.
0.3948.4At3g62130825386epimerase-relatedF:pyridoxal phosphate binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOFPAMO.I.H.G.S.X.
0.3948.4At3g03330821281short-chain dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:endoplasmic reticulum, plasma membrane;BOMFPAVO.I.H.G.S.X.
0.3745.0At4g00830827998RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.3745.0At3g11540820327SPY (SPINDLY)Encodes a N-acetyl glucosamine transferase that may glycosylate other molecules involved in GA signaling. Contains a tetratricopeptide repeat region, and a novel carboxy-terminal region. SPY acts as both a repressor of GA responses and as a positive regulation of cytokinin signalling. SPY may be involved in reducing ROS accumulation in response to stress.O.I.H.G.S.X.
0.3745.0At3g06960819881PDE320 (PIGMENT DEFECTIVE 320)F:molecular_function unknown;P:acylglycerol transport;C:endoplasmic reticulum, chloroplast;PO.I.H.G.S.X.
0.3541.6At4g38240829981CGL1 (COMPLEX GLYCAN LESS 1)Encodes N-acetyl glucosaminyl transferase I, the first enzyme in the pathway of complex glycan biosynthesis.O.I.H.G.S.X.
0.3541.6At4g27000828808ATRBP45CF:RNA binding;P:unknown;C:unknown;MPFOBAVO.I.H.G.S.X.
0.3439.8At5g54430835531universal stress protein (USP) family proteinContains a universal stress protein domain. Protein is phosphorylated in response to Phytophthora infestans zoospores and xylanase.O.I.H.G.S.X.
0.3439.8At5g46190834661KH domain-containing proteinF:RNA binding, nucleic acid binding;P:biological_process unknown;C:unknown;MPFOBO.I.H.G.S.X.
0.3439.8At5g19330832053armadillo/beta-catenin repeat family protein / BTB/POZ domain-containing proteinF:protein binding, binding;P:unknown;C:plasma membrane;MPOFVBAO.I.H.G.S.X.
0.3338.1At5g51340835208unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBO.I.H.G.S.X.
0.3338.1At1g04950839370TAF6 (TBP-ASSOCIATED FACTOR 6)Encodes one of two Arabidopsis proteins with significant similarity to the histone fold TBP-associated factor TAF6. Mutants are embryo lethal and transmission of the mutant allele through the male gametophyte is significantly reduced. This is due to reduced pollen tube growth of the mutant.O.I.H.G.S.X.
0.3338.1At4g05420825890DDB1A (DAMAGED DNA BINDING PROTEIN 1A)Structurally similar to damaged DNA binding proteins.DDB1a is part of a 350 KDa nuclear localized DET1 protein complex. This complex may physically interact with histone tails and while bound to chromatin- repress transcription of genes involved in photomorphogenesis.O.I.H.G.S.X.
0.3235.7At3g55530824718SDIR1 (SALT- AND DROUGHT-INDUCED RING FINGER1)Encodes an intracellular membrane localized protein with E3 ligase activity that is involved in regulation of ABA signaling. Loss of function alleles show decreased sensitivity to ABA. Overexpression results in increased sensitivity to ABA.O.I.H.G.S.X.
0.3235.7At3g12130820388KH domain-containing protein / zinc finger (CCCH type) family proteinF:transcription factor activity, nucleic acid binding;P:regulation of transcription;C:unknown;MPOFBO.I.H.G.S.X.
0.3235.7At1g73840843720ESP1 (ENHANCED SILENCING PHENOTYPE 1)Resembles the CstF64 family of RNA processing factors that are conserved between yeast and mammals. In mammals, CstF64 is a component of the CstF complex which is required for mRNA 3'end formation along with other factors.O.I.H.G.S.X.
0.3133.8At5g50320835098ELO3 (ELONGATA 3)A subunit of Elongator, a histone acetyl transferase complex, consisting of six subunits (ELP1–ELP6), that copurifies with the elongating RNAPII in yeast and humans. Three Arabidopsis thaliana genes, encoding homologs of the yeast Elongator subunits ELP1, ELP3 (histone acetyl transferase), and ELP4 are responsible for the narrow leaf phenotype in elongata mutants and for reduced root growth that results from a decreased cell division rate. Two lines with RNAi constructs directed against HAG3 grow normally and can produce root calli, but have defects in agrobacterium-mediated transformation.O.I.H.G.S.X.
0.3133.8At5g49840835047ATP binding / ATPase/ nucleoside-triphosphatase/ nucleotide binding / protein bindingF:protein binding, nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:protein transport;C:unknown;BOMFPAO.I.H.G.S.X.
0.3133.8At3g42790823316AL3 (ALFIN-LIKE 3)AL3 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA.O.I.H.G.S.X.
0.3032.1At1g14570838019UBX domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOBO.I.H.G.S.X.
0.3032.1At3g01150821129PTB1 (POLYPYRIMIDINE TRACT-BINDING PROTEIN 1)Encodes one of the two polypyrimidine tract-binding (PTB) protein homologs in the Arabidopsis genome. Double mutants have defects in pollen germination.O.I.H.G.S.X.
0.3032.1At5g63200836441tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;OBMAFPO.I.H.G.S.X.
0.2930.3At1g49850841408zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.2930.3At4g15415827211ATB' GAMMAB' regulatory subunit of PP2A (AtB'gamma)O.I.H.G.S.X.
0.2930.3At2g47900819402AtTLP3 (TUBBY LIKE PROTEIN 3)Member of TLP familyO.I.H.G.S.X.
0.2930.3At3g48750824036CDC2 (CELL DIVISION CONTROL 2)A-type cyclin-dependent kinase. Together with its specific inhibitor, the Kip-related protein, KRP2 they regulate the mitosis-to-endocycle transition during leaf development. Dominant negative mutations abolish cell division. Loss of function phenotype has reduced fertility with failure to transmit via pollen. Pollen development is arrested at the second mitotic division. Expression is regulated by environmental and chemical signals. Part of the promoter is responsible for expression in trichomes. Functions as a positive regulator of cell proliferation during development of the male gametophyte, embryo and endosperm. Phosphorylation of threonine 161 is required for activation of its associated kinase.O.I.H.G.S.X.
0.2830.3At3g63270825502unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.2830.3At1g33980840295Smg-4/UPF3 family proteinInvolved in mRNA surveillance, detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD)O.I.H.G.S.X.
0.2830.3At3g55460824712SCL30encodes an SC35-like splicing factor that is localized to nuclear specks.O.I.H.G.S.X.
0.2830.3At2g16940816197RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MOFPBVAO.I.H.G.S.X.
0.2830.3At3g05090819671transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.
0.2726.2At2g17510816257EMB2763 (EMBRYO DEFECTIVE 2763)F:ribonuclease activity, RNA binding;P:unknown;C:unknown;BOMFPAVO.I.H.G.S.X.
0.2726.2At2g25740817117ATP-dependent protease La (LON) domain-containing proteinF:ATP-dependent peptidase activity;P:N-terminal protein myristoylation, ATP-dependent proteolysis;C:cellular_component unknown;BOMPFO.I.H.G.S.X.
0.2726.2At3g22170821781FHY3 (FAR-RED ELONGATED HYPOCOTYLS 3)A component of the PHYA signaling network, mediates the FR-HIR response to far-red light in concert with FAR1.O.I.H.G.S.X.
0.2624.4At2g25760817118protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;MBOPFVAO.I.H.G.S.X.
0.2624.4At2g26350817175PEX10Zinc-binding peroxisomal integral membrane protein (PEX10). Inserted directly from the cytosol into peroxisomes and is involved in importing proteins into the peroxisome. Required for embryogenesis.O.I.H.G.S.X.
0.2624.4At5g35430833507bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MPOBFO.I.H.G.S.X.
0.2522.6At3g02200821267proteasome family proteinF:molecular_function unknown;P:unknown;C:unknown;MFPOBO.I.H.G.S.X.
0.2522.6At1g54390841881PHD finger protein-relatedING2 encodes a member of the Inhibitor of Growth family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA.O.I.H.G.S.X.
0.2522.6At1g80930844433MIF4G domain-containing protein / MA3 domain-containing proteinF:protein binding, RNA binding, binding;P:translation, RNA metabolic process;C:cytosol, nucleus;MOFBPVAO.I.H.G.S.X.
0.2522.6At2g39940818581COI1 (CORONATINE INSENSITIVE 1)Encodes a protein containing Leu-rich repeats and a degenerate F-box motif. Associates with AtCUL1, AtRbx1, and the Skp1-like proteins ASK1 and ASK2 to assemble SCF COI1 ubiquitin-ligase complexes in planta. A single amino acid substitution in the F-box motif of COI1 abolishes the formation of the SCF(COI1) complexes and results in loss of the JA response. Required for wound- and jasmonates-induced transcriptional regulation.O.I.H.G.S.X.
0.2522.6At5g28850833004calcium-binding EF hand family proteinF:calcium ion binding;P:biological_process unknown;C:endomembrane system;MOPFO.I.H.G.S.X.
0.2522.6At2g44900819099armadillo/beta-catenin repeat family protein / F-box family proteinARABIDILLO-1 and its homolog, ARABIDILLO -2, are unique among Arabidopsis Arm-repeat proteins in having an F-box motif and fall into a phylogenetically distinct subgroup from other plant Arm-repeat proteins Similar to arm repeat protein in rice and armadillo/beta-catenin repeat family protein / F-box family protein in Dictyostelium. ARABIDILLO-1 promote lateral root development. Mutant plants form fewer lateral roots, while ARABIDILLO-1-overexpressing lines produce more lateral roots than wild-type seedlings.O.I.H.G.S.X.
0.2522.6At1g55150841958DEAD box RNA helicase, putative (RH20)F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.2319.3At1g18450838425ATARP4Encodes a gene similar to actin-related proteins in other organisms. Member of nuclear ARP family of genes. Component of chromatin remodeling complexes, involved in chromatin-mediated gene regulation. Phenotype of the arp4-1 mutant allele revealed partial sterility due to defects in anther development. Targeting the distinct, 3' UTR of AtARP4 transcripts with RNA interference caused a drastic reduction in the level of AtARP4 protein expression, and resulted in strong pleiotropic phenotypes such as altered organization of plant organs, early flowering, delayed flower senescence and high levels of sterility. Western blot analysis and immunolabelling demonstrated a clear correlation between reductions in the level of AtARP4 expression and severity of the phenotypes.O.I.H.G.S.X.
0.2217.5At1g55325841978-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBPOFO.I.H.G.S.X.
0.2217.5At5g49830835046-F:unknown;P:unknown;C:plasma membrane;MFPOVO.I.H.G.S.X.
0.2115.8At2g28390817387SAND family proteinF:unknown;P:unknown;C:chloroplast;MFOBPAVO.I.H.G.S.X.
0.2115.8At2g21240816663BPC4 (BASIC PENTACYSTEINE 4)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMBO.I.H.G.S.X.
0.2115.8At3g07100819896protein transport protein Sec24, putativeF:protein binding, transporter activity, zinc ion binding;P:intracellular protein transport, transport, ER to Golgi vesicle-mediated transport;C:COPII vesicle coat;MFBOPVAO.I.H.G.S.X.
0.2115.8At4g00660828042DEAD/DEAH box helicase, putativeF:helicase activity, nucleic acid binding, ATP binding, ATP-dependent helicase activity;P:unknown;C:unknown;BOMFPAVO.I.H.G.S.X.
0.2115.8At4g05000825842VPS28-2F:transporter activity;P:transport;C:ESCRT I complex;MFPOO.I.H.G.S.X.
0.2014.4At4g34270829577TIP41-like family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.1912.7At3g01340821216protein transport protein SEC13 family protein / WD-40 repeat family proteinF:nucleotide binding;P:intracellular protein transport, membrane budding;C:cellular_component unknown;MFBOPAO.I.H.G.S.X.
0.1811.4At1g73720843707transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.

Select a plant to compare co-expressed genes between species.

Back to the CoP portal site

Back to the KAGIANA project homepage