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    HDAC7 histone deacetylase 7 [ Homo sapiens (human) ]

    Gene ID: 51564, updated on 14-Nov-2024

    Summary

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    Official Symbol
    HDAC7provided by HGNC
    Official Full Name
    histone deacetylase 7provided by HGNC
    Primary source
    HGNC:HGNC:14067
    See related
    Ensembl:ENSG00000061273 MIM:606542; AllianceGenome:HGNC:14067
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    HD7; HD7A; HDAC7A
    Summary
    Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events. Histone acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The protein encoded by this gene has sequence homology to members of the histone deacetylase family. This gene is orthologous to mouse HDAC7 gene whose protein promotes repression mediated via the transcriptional corepressor SMRT. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in lung (RPKM 18.9), spleen (RPKM 18.4) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See HDAC7 in Genome Data Viewer
    Location:
    12q13.11
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (47782722..47821344, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (47744115..47782739, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (48176505..48213686, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene RPAP3 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6258 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4394 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4395 Neighboring gene endonuclease, poly(U) specific Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:48131928-48133127 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6260 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6261 Neighboring gene Rap guanine nucleotide exchange factor 3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:48146243-48146784 Neighboring gene Sharpr-MPRA regulatory region 8178 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6262 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6263 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48151874-48152542 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48152543-48153211 Neighboring gene solute carrier family 48 member 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48167242-48167748 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48167749-48168253 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4398 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4399 Neighboring gene uncharacterized LOC124902926 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6264 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4400 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6266 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6265 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6267 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48211237-48211897 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48212615-48213188 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4402 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4403 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48214527-48215448 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6268 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6269 Neighboring gene long intergenic non-protein coding RNA 2354 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48236992-48237565 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48237566-48238138 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48239663-48240164 Neighboring gene vitamin D receptor Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48262276-48262776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6271 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48276324-48276836 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6273 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6274 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6275 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6276 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4404

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Histone deacetylase 7 silencing induces apoptosis and autophagy in salivary mucoepidermoid carcinoma cells. Ahn MY, et al. J Oral Pathol Med, 2017 Apr. PMID 28178760
    2. HDAC7-mediated control of tumour microenvironment maintains proliferative and stemness competence of human mammary epithelial cells. Cutano V, et al. Mol Oncol, 2019 Aug. PMID 31081251, Free PMC Article
    3. HDAC7 regulates histone 3 lysine 27 acetylation and transcriptional activity at super-enhancer-associated genes in breast cancer stem cells. Caslini C, et al. Oncogene, 2019 Sep. PMID 31375747
    4. High histone deacetylase 7 (HDAC7) expression is significantly associated with adenocarcinomas of the pancreas. Ouaïssi M, et al. Ann Surg Oncol, 2008 Aug. PMID 18506539
    5. Endothelial progenitor cells contribute to neovascularization of non-small cell lung cancer via histone deacetylase 7-mediated cytoskeleton regulation and angiogenic genes transcription. Wei Y, et al. Int J Cancer, 2018 Aug 1. PMID 29490434

    See all (152) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Epigenetic Modifiers HDAC2 and HDAC7 Inversely Associate with Cancer Stemness and Immunity in Solid Tumors.
      Title: The Epigenetic Modifiers HDAC2 and HDAC7 Inversely Associate with Cancer Stemness and Immunity in Solid Tumors.
    2. Comprehensive analysis of HDAC7 expression and its prognostic value in diffuse large B cell lymphoma: A review.
      Title: Comprehensive analysis of HDAC7 expression and its prognostic value in diffuse large B cell lymphoma: A review.
    3. Deacetylation of FOXP1 by HDAC7 potentiates self-renewal of mesenchymal stem cells.
      Title: Deacetylation of FOXP1 by HDAC7 potentiates self-renewal of mesenchymal stem cells.
    4. Histone deacetylase 7: a signalling hub controlling development, inflammation, metabolism and disease.
      Title: Histone deacetylase 7: a signalling hub controlling development, inflammation, metabolism and disease.
    5. Melatonin inhibits ESCC tumor growth by mitigating the HDAC7/beta-catenin/c-Myc positive feedback loop and suppressing the USP10-maintained HDAC7 protein stability.
      Title: Melatonin inhibits ESCC tumor growth by mitigating the HDAC7/β-catenin/c-Myc positive feedback loop and suppressing the USP10-maintained HDAC7 protein stability.
    6. WNT5A promotes the metastasis of esophageal squamous cell carcinoma by activating the HDAC7/SNAIL signaling pathway.
      Title: WNT5A promotes the metastasis of esophageal squamous cell carcinoma by activating the HDAC7/SNAIL signaling pathway.
    7. A regulative epigenetic circuit supervised by HDAC7 represses IGFBP6 and IGFBP7 expression to sustain mammary stemness.
      Title: A regulative epigenetic circuit supervised by HDAC7 represses IGFBP6 and IGFBP7 expression to sustain mammary stemness.
    8. Histone deacetylase 7 mediates endothelin-1-induced connective tissue growth factor expression in human lung fibroblasts through p300 and activator protein-1 activation.
      Title: Histone deacetylase 7 mediates endothelin-1-induced connective tissue growth factor expression in human lung fibroblasts through p300 and activator protein-1 activation.
    9. Histone Deacetylase 7 Gene Overexpression Is Associated with Poor Prognosis of Triple-Negative Breast Cancer Patients.
      Title: Histone Deacetylase 7 Gene Overexpression Is Associated with Poor Prognosis of Triple-Negative Breast Cancer Patients.
    10. HDAC7 is a major contributor in the pathogenesis of infant t(4;11) proB acute lymphoblastic leukemia.
      Title: HDAC7 is a major contributor in the pathogenesis of infant t(4;11) proB acute lymphoblastic leukemia.
    Submit: New GeneRIF Correction See all GeneRIFs (73)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genome-wide association analyses identify 18 new loci associated with serum urate concentrations.
    EBI GWAS Catalog
    Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    matrix gag HIV-1 MA downregulates HDAC7 gene expression in HepG2 cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ99588, DKFZp586J0917

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables 14-3-3 protein binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables SUMO transferase activity TAS
    Traceable Author Statement
    more info
    		  
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K14 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K4 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K9 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K12 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K16 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K5 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K8 deacetylase activity, hydrolytic mechanism IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone deacetylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone deacetylase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein kinase C binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein lysine deacetylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tubulin deacetylase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell-cell junction assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in epigenetic regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of interleukin-2 production IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of non-canonical NF-kappaB signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of osteoblast differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of cell migration involved in sprouting angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein deacetylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein sumoylation TAS
    Traceable Author Statement
    more info
    		  
    involved_in regulation of mRNA processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in vasculogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    part_of histone deacetylase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    histone deacetylase 7
    Names
    histone deacetylase 7A
    protein deacetylase HDAC7
    NP_001091886.1
    NP_001295019.1
    NP_001354975.1
    NP_056216.2
    XP_011536782.1
    XP_011536783.2
    XP_011536785.1
    XP_024304786.1
    XP_047284934.1
    XP_047284935.1
    XP_047284936.1
    XP_047284937.1
    XP_047284938.1
    XP_047284939.1
    XP_047284940.1
    XP_054228219.1
    XP_054228220.1
    XP_054228221.1
    XP_054228222.1
    XP_054228223.1
    XP_054228224.1
    XP_054228225.1
    XP_054228226.1
    XP_054228227.1
    XP_054228228.1
    XP_054228229.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001098416.4 → NP_001091886.1  histone deacetylase 7 isoform d

      See identical proteins and their annotated locations for NP_001091886.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an alternate in-frame exon in the mid-coding region, compared to variant 1. The resulting isoform (d) has the same N- and C-termini but is shorter than isoform a.
      Source sequence(s)
      BC020505, BC064840, DC376749
      Consensus CDS
      CCDS41776.1
      UniProtKB/TrEMBL
      J3KPH8
      Related
      ENSP00000351326.3, ENST00000354334.7
      Conserved Domains (1) summary
      cd10008
      Location:520 → 897
      HDAC7; Histone deacetylase 7

    2. NM_001308090.2 → NP_001295019.1  histone deacetylase 7 isoform e

      See identical proteins and their annotated locations for NP_001295019.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. The resulting isoform (e) has the same N- and C-termini but is shorter than isoform a.
      Source sequence(s)
      AK122588, AK299292, AK303481, BM144303, DC376749
      Consensus CDS
      CCDS81685.1
      UniProtKB/TrEMBL
      J3KPH8
      Related
      ENSP00000448532.1, ENST00000552960.5
      Conserved Domains (1) summary
      cd10008
      Location:540 → 917
      HDAC7; Histone deacetylase 7

    3. NM_001368046.1 → NP_001354975.1  histone deacetylase 7 isoform f

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) encodes the longest isoform (f).
      Source sequence(s)
      AC004466
      UniProtKB/TrEMBL
      J3KPH8

    4. NM_015401.5 → NP_056216.2  histone deacetylase 7 isoform a

      See identical proteins and their annotated locations for NP_056216.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1, also known as variant 3) encodes isoform a (also known as isoform c).
      Source sequence(s)
      AY302468, BC020505, DC376749
      Consensus CDS
      CCDS8756.2
      UniProtKB/TrEMBL
      J3KPH8
      Related
      ENSP00000080059.7, ENST00000080059.12
      Conserved Domains (1) summary
      cd10008
      Location:557 → 934
      HDAC7; Histone deacetylase 7

    RNA

    1. NR_160435.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC004466
      Related
      ENST00000470668.5

    2. NR_160436.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC004466

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      47782722..47821344 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047428980.1 → XP_047284936.1  histone deacetylase 7 isoform X6

    2. XM_047428979.1 → XP_047284935.1  histone deacetylase 7 isoform X5

    3. XM_011538481.2 → XP_011536783.2  histone deacetylase 7 isoform X1

    4. XM_047428983.1 → XP_047284939.1  histone deacetylase 7 isoform X9

    5. XM_047428978.1 → XP_047284934.1  histone deacetylase 7 isoform X2

    6. XM_024449018.2 → XP_024304786.1  histone deacetylase 7 isoform X3

      UniProtKB/TrEMBL
      J3KPH8
      Conserved Domains (1) summary
      cd10008
      Location:564 → 941
      HDAC7; Histone deacetylase 7

    7. XM_047428981.1 → XP_047284937.1  histone deacetylase 7 isoform X7

    8. XM_011538480.1 → XP_011536782.1  histone deacetylase 7 isoform X4

      UniProtKB/TrEMBL
      J3KPH8
      Conserved Domains (1) summary
      cd10008
      Location:564 → 941
      HDAC7; Histone deacetylase 7

    9. XM_047428982.1 → XP_047284938.1  histone deacetylase 7 isoform X8

      UniProtKB/Swiss-Prot
      B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7
      Related
      ENSP00000404394.2, ENST00000427332.6

    10. XM_047428984.1 → XP_047284940.1  histone deacetylase 7 isoform X8

      UniProtKB/Swiss-Prot
      B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7

    11. XM_011538483.1 → XP_011536785.1  histone deacetylase 7 isoform X10

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      47744115..47782739 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054372249.1 → XP_054228224.1  histone deacetylase 7 isoform X6

    2. XM_054372248.1 → XP_054228223.1  histone deacetylase 7 isoform X5

    3. XM_054372244.1 → XP_054228219.1  histone deacetylase 7 isoform X1

    4. XM_054372252.1 → XP_054228227.1  histone deacetylase 7 isoform X9

    5. XM_054372245.1 → XP_054228220.1  histone deacetylase 7 isoform X2

    6. XM_054372246.1 → XP_054228221.1  histone deacetylase 7 isoform X3

    7. XM_054372250.1 → XP_054228225.1  histone deacetylase 7 isoform X7

    8. XM_054372247.1 → XP_054228222.1  histone deacetylase 7 isoform X4

    9. XM_054372251.1 → XP_054228226.1  histone deacetylase 7 isoform X8

      UniProtKB/Swiss-Prot
      B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7

    10. XM_054372253.1 → XP_054228228.1  histone deacetylase 7 isoform X8

      UniProtKB/Swiss-Prot
      B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7

    11. XM_054372254.1 → XP_054228229.1  histone deacetylase 7 isoform X10

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_016596.3: Suppressed sequence

      Description
      NM_016596.3: This RefSeq was temporarily suppressed because the CDS was partial.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8WUI4.2 GenPept UniProtKB/Swiss-Prot:Q8WUI4

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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