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ZNF639 zinc finger protein 639 [ Homo sapiens (human) ]

Gene ID: 51193, updated on 11-Apr-2024

Summary

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Official Symbol
ZNF639provided by HGNC
Official Full Name
zinc finger protein 639provided by HGNC
Primary source
HGNC:HGNC:30950
See related
Ensembl:ENSG00000121864 MIM:619214; AllianceGenome:HGNC:30950
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
ZASC1; ANC-2H01; ANC_2H01
Summary
This gene encodes a member of the Kruppel-like zinc finger family of proteins. Amplification and overexpression of this gene have been observed in esophageal squamous cell carcinoma. The encoded protein has been shown to bind DNA in a sequence-specific manner and may regulate HIV-1 gene expression. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]
Expression
Ubiquitous expression in thyroid (RPKM 9.3), bone marrow (RPKM 8.6) and 25 other tissues See more
Orthologs
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Genomic context

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See ZNF639 in Genome Data Viewer
Location:
3q26.33
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (179322876..179338583)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (182126717..182142424)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (179040664..179056371)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA25 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14913 Neighboring gene phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha Neighboring gene ReSE screen-validated silencer GRCh37_chr3:178905170-178905394 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14914 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:178980593-178981094 Neighboring gene potassium calcium-activated channel subfamily M regulatory beta subunit 3 Neighboring gene LRR binding FLII interacting protein 1 pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 12572 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:179008749-179009491 Neighboring gene CRISPRi-validated cis-regulatory element chr3.5052 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20863 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14915 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14916 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20864 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20865 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:179065206-179065735 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20866 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14917 Neighboring gene mitofusin 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20867 Neighboring gene G protein subunit beta 4 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:179160994-179161145 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14918 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14919 Neighboring gene ribosomal protein L29 pseudogene 34

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
  • 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. Increase of ZASC1 gene copy number in recurrent oral carcinoma. Chiang WF, et al. Oral Dis, 2011 Jan. PMID 20646234
  2. Cellular transcription factor ZASC1 regulates murine leukemia virus transcription. Bruce JW, et al. J Virol, 2010 Aug. PMID 20484494, Free PMC Article
  3. Identification of ZASC1 encoding a Krüppel-like zinc finger protein as a novel target for 3q26 amplification in esophageal squamous cell carcinomas. Imoto I, et al. Cancer Res, 2003 Sep 15. PMID 14522885
  4. ZASC1 stimulates HIV-1 transcription elongation by recruiting P-TEFb and TAT to the LTR promoter. Bruce JW, et al. PLoS Pathog, 2013 Oct. PMID 24204263, Free PMC Article
  5. Nuclear translocation of alphaN-catenin by the novel zinc finger transcriptional repressor ZASC1. Bogaerts S, et al. Exp Cell Res, 2005 Nov 15. PMID 16182284

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Tat tat ZASC1 interacts with HIV-1 Tat and cellular proteins CDK9/Cyclin T1 (P-TEFb) in a TAR-independent manner, suggesting that the Tat/P-TEFb complex in the transcriptional elongation site is promoted by ZASC1 PubMed
tat ZASC1, a cellular transcription factor, stimulates HIV-1 Tat-mediated transcription elongation from the HIV-1 promoter in primary T cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ16532, 6230400O18Rik

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation by host of viral transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation by host of viral transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of cell growth IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in symbiont entry into host cell IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
zinc finger protein 639
Names
zinc finger amplified in esophageal squamous cell carcinomas 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_001303425.2 → NP_001290354.1  zinc finger protein 639

    See identical proteins and their annotated locations for NP_001290354.1

    Status: REVIEWED

    Source sequence(s)
    AB097862, AC007823, BC026181, BF799661, BP260931, DB457196
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. NM_001303426.2 → NP_001290355.1  zinc finger protein 639

    See identical proteins and their annotated locations for NP_001290355.1

    Status: REVIEWED

    Source sequence(s)
    AB097862, AC007823, BC026181, BP260931, DB457196
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Related
    ENSP00000417740.1, ENST00000496856.6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  3. NM_001375800.1 → NP_001362729.1  zinc finger protein 639

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  4. NM_001375802.1 → NP_001362731.1  zinc finger protein 639

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  5. NM_001375803.1 → NP_001362732.1  zinc finger protein 639

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Related
    ENSP00000477626.1, ENST00000621687.1
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  6. NM_001375804.1 → NP_001362733.1  zinc finger protein 639

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  7. NM_001375805.1 → NP_001362734.1  zinc finger protein 639

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  8. NM_001375806.1 → NP_001362735.1  zinc finger protein 639

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  9. NM_001375807.1 → NP_001362736.1  zinc finger protein 639

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Related
    ENSP00000418766.1, ENST00000484866.5
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  10. NM_016331.3 → NP_057415.1  zinc finger protein 639

    See identical proteins and their annotated locations for NP_057415.1

    Status: REVIEWED

    Source sequence(s)
    AC007823
    Consensus CDS
    CCDS3227.1
    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Related
    ENSP00000325634.3, ENST00000326361.7
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    179322876..179338583
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017006553.2 → XP_016862042.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. XM_047448258.1 → XP_047304214.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6

  3. XM_017006550.2 → XP_016862039.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
    Conserved Domains (1) summary
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]

  4. XM_047448257.1 → XP_047304213.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    182126717..182142424
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054346747.1 → XP_054202722.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6

  2. XM_054346749.1 → XP_054202724.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6

  3. XM_054346746.1 → XP_054202721.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6

  4. XM_054346748.1 → XP_054202723.1  zinc finger protein 639 isoform X1

    UniProtKB/Swiss-Prot
    A9X3Z9, D3DNR3, Q9UID6
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9UID6.1 GenPept UniProtKB/Swiss-Prot:Q9UID6

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