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    ZNF304 zinc finger protein 304 [ Homo sapiens (human) ]

    Gene ID: 57343, updated on 27-Dec-2024

    Summary

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    Official Symbol
    ZNF304provided by HGNC
    Official Full Name
    zinc finger protein 304provided by HGNC
    Primary source
    HGNC:HGNC:13505
    See related
    Ensembl:ENSG00000131845 MIM:613840; AllianceGenome:HGNC:13505
    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
    Summary
    This gene encodes a member of the Krueppel C2H2-type zinc-finger family of proteins. The encoded protein functions as a transcriptional repressor that recruits a corepressor complex to stimulate promoter hypermethylation and transcriptional silencing of target genes. Expression of this gene is upregulated in colorectal, ovarian and breast cancer, and this gene may promote cancer cell survival, growth and invasion. [provided by RefSeq, Jul 2016]
    Expression
    Ubiquitous expression in thyroid (RPKM 4.2), spleen (RPKM 3.4) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF304 in Genome Data Viewer
    Location:
    19q13.43
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (57351271..57359898)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (60448301..60456928)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (57862639..57871266)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene PPPDE peptidase domain containing 1 pseudogene Neighboring gene Sharpr-MPRA regulatory region 10022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:57830216-57830733 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15131 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15132 Neighboring gene zinc finger protein 543 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:57861815-57862674 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:57862675-57863533 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15135 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15136 Neighboring gene trafficking protein particle complex subunit 2B Neighboring gene zinc finger protein 547 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15137 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15138 Neighboring gene zinc finger protein 548

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. The ZNF304-integrin axis protects against anoikis in cancer. Aslan B, et al. Nat Commun, 2015 Jun 17. PMID 26081979, Free PMC Article
    2. Identification of a KRAB-containing zinc finger protein, ZNF304, by AU-motif-directed display method and initial characterization in lymphocyte activation. Sabater L, et al. Biochem Biophys Res Commun, 2002 May 10. PMID 12051768
    3. Genome-wide CRISPR knockout screen identifies ZNF304 as a silencer of HIV transcription that promotes viral latency. Krasnopolsky S, et al. PLoS Pathog, 2020 Sep. PMID 32956422, Free PMC Article
    4. A KRAS-directed transcriptional silencing pathway that mediates the CpG island methylator phenotype. Serra RW, et al. Elife, 2014 Mar 12. PMID 24623306, Free PMC Article
    5. Proteome-scale mapping of binding sites in the unstructured regions of the human proteome. Benz C, et al. Mol Syst Biol, 2022 Jan. PMID 35044719, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Genome-wide CRISPR knockout screen identifies ZNF304 as a silencer of HIV transcription that promotes viral latency.
      Title: Genome-wide CRISPR knockout screen identifies ZNF304 as a silencer of HIV transcription that promotes viral latency.
    2. transcriptional regulator of beta1 integrin, promotes cancer cell survival and protects against anoikis in ovarian cancer
      Title: The ZNF304-integrin axis protects against anoikis in cancer.
    3. Identification of ZNF304, by AU-motif-directed display method and characterization of its role in lymphocyte activation
      Title: Identification of a KRAB-containing zinc finger protein, ZNF304, by AU-motif-directed display method and initial characterization in lymphocyte activation.
    Submit: New GeneRIF Correction

    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Clone Names

    • MGC129703, MGC129704

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables promoter-specific chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA methylation-dependent constitutive heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in angiogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in integrin-mediated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of anoikis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of angiogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of cell migration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of epithelial cell proliferation 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
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein 304
    Names
    KRAB-containing zinc finger protein

    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.

    Genomic

    1. NG_051201.1 RefSeqGene

      Range
      5019..13646
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001290318.2 → NP_001277247.1  zinc finger protein 304 isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC005261, BC111532, BP315423
      Consensus CDS
      CCDS77365.1
      UniProtKB/TrEMBL
      E7EQD3
      Related
      ENSP00000401642.2, ENST00000443917.6
      Conserved Domains (3) summary
      COG5048
      Location:325 → 680
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:384 → 404
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:13 → 53
      KRAB; KRAB box

    2. NM_001290319.2 → NP_001277248.1  zinc finger protein 304 isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region, initiates translation at a downstream start codon and lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. It encodes isoform 3, which is shorter than isoform 1.
      Source sequence(s)
      AC005261, BC111531, BP315423
      Consensus CDS
      CCDS74462.1
      UniProtKB/TrEMBL
      M0QZ59
      Related
      ENSP00000470319.1, ENST00000598744.1
      Conserved Domains (3) summary
      COG5048
      Location:236 → 591
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:295 → 315
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:307 → 332
      zf-H2C2_2; Zinc-finger double domain

    3. NM_001329456.2 → NP_001316385.1  zinc finger protein 304 isoform 4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and uses a downstream translation start site compared to variant 1. The encoded isoform (4) has a shorter N-terminus than isoform 1.
      Source sequence(s)
      AC005261

    4. NM_020657.4 → NP_065708.2  zinc finger protein 304 isoform 2

      See identical proteins and their annotated locations for NP_065708.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
      Source sequence(s)
      AC005261, BC111532, BP315423
      Consensus CDS
      CCDS12950.1
      UniProtKB/Swiss-Prot
      Q9HCX3
      Related
      ENSP00000282286.4, ENST00000282286.6
      Conserved Domains (5) summary
      smart00349
      Location:14 → 55
      KRAB; krueppel associated box
      COG5048
      Location:278 → 633
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:337 → 357
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:14 → 53
      KRAB; KRAB box
      pfam13465
      Location:349 → 374
      zf-H2C2_2; Zinc-finger double domain

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      57351271..57359898
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011527145.3 → XP_011525447.1  zinc finger protein 304 isoform X1

      See identical proteins and their annotated locations for XP_011525447.1

      Conserved Domains (3) summary
      COG5048
      Location:283 → 638
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:342 → 362
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:354 → 379
      zf-H2C2_2; Zinc-finger double domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      60448301..60456928
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054321521.1 → XP_054177496.1  zinc finger protein 304 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9HCX3.2 GenPept UniProtKB/Swiss-Prot:Q9HCX3

    Gene LinkOut

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