Gene omics information

Query gene ID At4g38130
Organism Arabidopsis thaliana

Co-expressed genes

As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
1.00100.0At4g38130829969HD1 (HISTONE DEACETYLASE 1)Encodes a histone deacetylase that enhances AtERF7-mediated transcriptional repression. Binds SIM3 and ERF7. Expressed in the nucleus in most tissues examined and throughout the life of the plant. Involved in jasmonic acid and ethylene dependent pathogen resistance. The sequence in GenBank has 17 AG dinucleotide repeats missing, which is also missing in Ler shotgun sequence from Cereon. Although it is annotated to be in Columbia, the GB sequence is probably not of Columbia origin. Plays a role in embryogenesis as mutants grown at higher temperatures display abnormalities in the organization of the root and shoot. Plant lines expressing an RNAi construct targeted against HDA19 shows some resistance to agrobacterium-mediated root transformation.S.X.H.G.
0.6176.7At5g04280830307glycine-rich RNA-binding proteinF:RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:nucleolus;MPFOBVAS.X.H.G.
0.5773.8At5g64200836541ATSC35encodes an SC35-like splicing factor of 35 kD localized to the nuclear specks.S.X.H.G.
0.5267.4At3g15010820730RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:nucleolus;MBPOFVAS.X.H.G.
0.5166.3At4g39520830106GTP-binding protein, putativeF:GTP binding;P:unknown;C:intracellular;BOMAFPS.X.H.G.
0.5166.3At5g11170830986ATP binding / ATP-dependent helicase/ helicase/ nucleic acid bindingF:helicase activity, ATP-dependent helicase activity, nucleic acid binding, ATP binding;P:response to cadmium ion;C:nucleolus;BOMFPAVS.X.H.G.
0.5065.3At2g25970817137KH domain-containing proteinF:RNA binding, nucleic acid binding;P:unknown;C:unknown;MBFOPVAS.X.H.G.
0.4963.5At1g54270841868EIF4A-2member of eIF4A - eukaryotic initiation factor 4AS.X.H.G.
0.4862.5At5g09900830850EMB2107 (EMBRYO DEFECTIVE 2107)Encodes one of two isoforms for the 26S proteasome regulatory protein (RN) subunit RPN5. For many functions it acts redundantly with the paralogous gene RPN5b but also appears to exert independent effects.S.X.H.G.
0.4761.2At1g20200838609EMB2719 (EMBRYO DEFECTIVE 2719)F:enzyme regulator activity;P:embryonic development ending in seed dormancy, ubiquitin-dependent protein catabolic process;C:plasma membrane, proteasome regulatory particle, lid subcomplex;MFPOS.X.H.G.
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Specifically expressed experiments

As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX%ileGSM IDAssay NameGSE IDExperiment Title
23.599.6GSM133120RIKEN-YAMAUCHI2BGSE5687AtGenExpress: Different temperature treatment of seeds
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Homologous genes

Paralogous genes

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HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.092e-1067At5g63110836431HDA6 (HISTONE DEACETYLASE 6)RPD3-like histone deacetylase. HDA6 mutations specifically increase the expression of auxin-responsive transgenes, suggesting a role in transgene silencing.C.G.S.X.
0.098e-446At5g35600833525HDA7 (histone deacetylase7)F:histone deacetylase activity;P:histone deacetylation;C:nucleus;OBMFPAC.G.S.X.
0.012e-138At2g04160814953AIR3isolated from differential screening of a cDNA library from auxin-treated root culture. encodes a protein similar to subtilisin-like serine protease which is believed to be active outside the plant cell.C.G.S.X.
0.017e-136At5g41020834104myb family transcription factorF:transcription factor activity, DNA binding;P:unknown;C:unknown;MOFBPVAC.G.S.X.
0.027e-136At4g01630827983ATEXPA17 (ARABIDOPSIS THALIANA EXPANSIN A17)member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)C.G.S.X.
0.017e-136At4g28630828981ATM1 (ABC TRANSPORTER OF THE MITOCHONDRION)half-molecule ABC transporter ATM1C.G.S.X.
0.017e-136At1g77620844097nucleoside-triphosphatase/ nucleotide bindingF:nucleoside-triphosphatase activity, nucleotide binding;P:DNA repair, cell cycle;C:nucleus;MFOAPVC.G.S.X.
0.027e-136At1g75050843843-F:molecular_function unknown;P:response to other organism;C:endomembrane system;PMFBOVC.G.S.X.
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Orthologous genes

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HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.275e-21103Glycine maxGmaAffx.75607.1.S1_atAW308961--2e-21At4g38130HD1 (HISTONE DEACETYLASE 1)C.G.S.X.
0.404e-44178Hordeum vulgareContig5301_atContig5301--1e-43At4g38130HD1 (HISTONE DEACETYLASE 1)C.G.S.X.
0.423e-29131Oryza sativaOs02g0215200AF513383.1-Histone deacetylase (Fragment)8e-29At4g38130HD1 (HISTONE DEACETYLASE 1)C.G.S.X.
0.562e-91337Populus trichocarpaPtpAffx.6033.1.S1_atCA932145histone deacetylase-2e-91At4g38130HD1 (HISTONE DEACETYLASE 1)C.G.S.X.
0.346e-57222Triticum aestivumTa.27150.1.S1_atCK162660--1e-56At4g38130HD1 (HISTONE DEACETYLASE 1)C.G.S.X.
0.197e-23107Vitis vinifera1617779_atCF404409hypothetical protein LOC100241833-1e-22At4g38130HD1 (HISTONE DEACETYLASE 1)C.G.S.X.
0.383e-35149Zea maysZm.13633.1.A1_atAY107370.1hypothetical protein LOC100276617-1e-34At4g38130HD1 (HISTONE DEACETYLASE 1)C.G.S.X.
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Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECCGO IDProcess Name
XGO:0009294The introduction and uptake of foreign genetic material (DNA or RNA) into a cell, and often the expression of that genetic material.
XGO:0016573The modification of a histone by the addition of an acetyl group.
XGO:0016481Any process that stops, prevents or reduces the frequency, rate or extent of transcription.
XGO:0009861The jasmonic acid and ethylene (ethene) dependent process that confers broad spectrum systemic resistance to disease in response to wounding or a pathogen.
CGO:0016575The modification of histones by removal of acetyl groups.
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Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View IDLink to Kappa-ViewPathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

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