Gene omics information

Query gene ID At5g22650
Gene name HD2B (HISTONE DEACETYLASE 2B)
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
0.3541.6At5g22650832328HD2B (HISTONE DEACETYLASE 2B)Encodes a member of a plant-specific class of histone deacetylases. Controls the development of adaxial/abaxial leaf polarity. Its mRNA is widely expressed in stems, leaves, flowers and young siliques. Plant lines expressing RNAi constructs directed against this gene showed a marked reduction in agrobacterium-mediated root transformation.S.X.H.G.
0.6176.7At3g11964820370RNA bindingF:RNA binding;P:mRNA processing, RNA processing;C:nucleolus, plasma membrane;BOMFPAS.X.H.G.
0.5974.7At3g21540821708transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:rRNA processing;C:nucleolus, heterotrimeric G-protein complex;MFOPBAS.X.H.G.
0.5773.8At3g18600821391DEAD/DEAH box helicase, putativeF:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:nucleolus;BOMFPAVS.X.H.G.
0.5570.6At3g09720820129DEAD/DEAH box helicase, putativeF:helicase activity, ATP-dependent helicase activity, nucleic acid binding, ATP binding;P:unknown;C:cellular_component unknown;BOMFPAVS.X.H.G.
0.5570.6At5g61770836299PPAN (PETER PAN-LIKE PROTEIN)F:unknown;P:unknown;C:cellular_component unknown;MOFPVBS.X.H.G.
0.5368.6At4g32720829408AtLa1 (Arabidopsis thaliana La protein 1)Encodes AtLa1, a member of the highly abundant phosphoprotein La proteins. Predominantly localized to the nucleoplasm and was also detected in the nucleolar cavity. Has RNA binding activity. Required for normal ribosome biogenesis and embryogenesis.S.X.H.G.
0.5065.3At4g04940825833transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:rRNA processing;C:CUL4 RING ubiquitin ligase complex;MFBOPAS.X.H.G.
0.4761.2At2g37990818377ribosome biogenesis regulatory protein (RRS1) family proteinF:unknown;P:ribosome biogenesis;C:nucleolus;MFOPBS.X.H.G.
0.4355.3At1g8075084441460S ribosomal protein L7 (RPL7A)F:structural constituent of ribosome, transcription regulator activity;P:translation;C:cytosolic large ribosomal subunit, nucleolus, large ribosomal subunit;MOFPAS.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
61.999.8GSM311274Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stage
40.499.8GSM284384Arabidopsis GEP5GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
35.599.7GSM311273Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stage
30.499.7GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
27.999.7GSM133119RIKEN-YAMAUCHI2AGSE5687AtGenExpress: Different temperature treatment of seeds
24.799.6E-ATMX-13-raw-cel-1556149791
21.899.6E-ATMX-13-raw-cel-1556149775
21.599.6GSM133949Murray_2-5_T8-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studies
20.299.6E-ATMX-13-raw-cel-1556149887
19.699.6E-ATMX-13-raw-cel-1556149935
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Homologous genes



Paralogous genes



Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.193e-550At3g44750823605HDA3 (HISTONE DEACETYLASE 3)Encodes a histone deacetylase. Controls the development of adaxial/abaxial leaf polarity. Two lines with RNAi-directed against this gene show reduced Agrobacterium-mediated DNA transformation of the roots.C.G.S.X.
0.043e-550At2g19480816467NAP1This gene is predicted to encode a nucleosome assembly protein. Plant lines expressing an RNAi construct directed against this gene show a reduction in agrobacterium-mediated root transformation.C.G.S.X.
0.033e-240At2g02880814819mucin-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMBC.G.S.X.
0.023e-240At1g58310842200F-box family proteinF:unknown;P:biological_process unknown;C:unknown;PC.G.S.X.
0.021e-138At1g72710843603CKL2 (CASEIN KINASE 1-LIKE PROTEIN 2)Encodes a member of the casein kinase 1 protein family that is localized to the cytoplasm and nucleus.C.G.S.X.
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Orthologous genes



Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.032e-138Glycine maxPsAffx.C62000050_s_atPsAffx.C62000050--9e-1At4g35190unknown proteinC.G.S.X.
0.049e-134Hordeum vulgareContig5793_atContig5793--1e-1At5g23950C2 domain-containing proteinC.G.S.X.
0.052e-757Oryza sativaOs05g0597100AK072845.1-Nucleolar histone deacetylase HD2-p391e-2At3g44750HDA3 (HISTONE DEACETYLASE 3)C.G.S.X.
0.072e-448Populus trichocarpaPtp.5518.1.S1_s_atBU836017histone deacetylase-2e-4At5g22650HD2B (HISTONE DEACETYLASE 2B)C.G.S.X.
0.043e-240Triticum aestivumTaAffx.78616.1.S1_x_atCA730034--4e-3At2g23320WRKY15C.G.S.X.
0.064e-857Vitis vinifera1616293_atCF212351hypothetical protein LOC100256817-1e-3At3g44750HDA3 (HISTONE DEACETYLASE 3)C.G.S.X.
0.071e-550Zea maysZm.500.1.A1_atAF254072.1Histone deacetylase 2 isoform b-5e-5At5g22650HD2B (HISTONE DEACETYLASE 2B)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:0009944The process resulting in the establishment of polarity along the adaxial/abaxial axis. Adaxial refers to being situated toward an axis of an anatomical structure. Abaxial refers to being situated away from an axis of an anatomical structure.
XGO:0016481Any process that stops, prevents or reduces the frequency, rate or extent of transcription.
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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.

KEGG PATHWAY IDLink to KEGG PATHWAYPathway Name
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