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ZNF658 zinc finger protein 658 [ Homo sapiens (human) ]

Gene ID: 26149, updated on 5-Mar-2024

Summary

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Official Symbol
ZNF658provided by HGNC
Official Full Name
zinc finger protein 658provided by HGNC
Primary source
HGNC:HGNC:25226
See related
Ensembl:ENSG00000274349 MIM:616290; AllianceGenome:HGNC:25226
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Enables transcription cis-regulatory region binding activity. Involved in cellular response to zinc ion; negative regulation of transcription, DNA-templated; and ribosome biogenesis. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in skin (RPKM 2.5), thyroid (RPKM 2.1) and 25 other tissues See more
Orthologs
all
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Genomic context

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Location:
9q21.11
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (66900725..66932141)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (78672849..78704251)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (40760700..40792116, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene CNTNAP3 pseudogene 9 Neighboring gene S-phase kinase associated protein 1 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:40713401-40713901 Neighboring gene family with sequence similarity 74 member A3 Neighboring gene SPATA31 subfamily A member 3

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. Genomic Characterization of the Zinc Transcriptional Regulatory Element Reveals Potential Functional Roles of ZNF658. Francis M, et al. Biol Trace Elem Res, 2019 Dec. PMID 30734197, Free PMC Article
  2. The zinc finger protein ZNF658 regulates the transcription of genes involved in zinc homeostasis and affects ribosome biogenesis through the zinc transcriptional regulatory element. Ogo OA, et al. Mol Cell Biol, 2015 Mar. PMID 25582195, Free PMC Article
  3. A whole genome screen for HIV restriction factors. Liu L, et al. Retrovirology, 2011 Nov 14. PMID 22082156, Free PMC Article
  4. DNA sequence and analysis of human chromosome 9. Humphray SJ, et al. Nature, 2004 May 27. PMID 15164053, Free PMC Article
  5. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Genomic Characterization of the Zinc Transcriptional Regulatory Element Reveals Potential Functional Roles of ZNF658
    Title: Genomic Characterization of the Zinc Transcriptional Regulatory Element Reveals Potential Functional Roles of ZNF658.
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)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of zinc finger protein 658 (ZNF658) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N 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

  • FLJ32813, MGC35232, DKFZp572C163

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription activator 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 transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in cellular response to zinc ion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ribosome biogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
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 658

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_001317916.2 → NP_001304845.1  zinc finger protein 658

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the functional protein. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK292150, AL110217, AL353770, BX664608, DA103495
    Consensus CDS
    CCDS75846.1
    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
    Related
    ENSP00000482540.1, ENST00000612867.4
    Conserved Domains (5) summary
    smart00349
    Location:8 → 68
    KRAB; krueppel associated box
    COG5048
    Location:628 → 1044
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:940 → 960
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:8 → 47
    KRAB; KRAB box
    pfam13465
    Location:1009 → 1033
    zf-H2C2_2; Zinc-finger double domain

  2. NM_033160.7 → NP_149350.3  zinc finger protein 658

    See identical proteins and their annotated locations for NP_149350.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK057375, AL110217, AL353770, BX664608, DA103495
    Consensus CDS
    CCDS75846.1
    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
    Related
    ENSP00000482447.1, ENST00000621410.5
    Conserved Domains (5) summary
    smart00349
    Location:8 → 68
    KRAB; krueppel associated box
    COG5048
    Location:628 → 1044
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:940 → 960
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:8 → 47
    KRAB; KRAB box
    pfam13465
    Location:1009 → 1033
    zf-H2C2_2; Zinc-finger double domain

RNA

  1. NR_134255.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks a 5' exon and contains two alternate exons in the 3' terminus, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL353770, BC031626, BX664608
    Related
    ENST00000622180.4

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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    66900725..66932141
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047423212.1 → XP_047279168.1  zinc finger protein 658 isoform X1

    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02

  2. XM_005272515.6 → XP_005272572.1  zinc finger protein 658 isoform X1

    See identical proteins and their annotated locations for XP_005272572.1

    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
    Conserved Domains (5) summary
    smart00349
    Location:8 → 68
    KRAB; krueppel associated box
    COG5048
    Location:628 → 1044
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:940 → 960
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:8 → 47
    KRAB; KRAB box
    pfam13465
    Location:1009 → 1033
    zf-H2C2_2; Zinc-finger double domain

  3. XM_011545679.4 → XP_011543981.1  zinc finger protein 658 isoform X1

    See identical proteins and their annotated locations for XP_011543981.1

    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
    Conserved Domains (5) summary
    smart00349
    Location:8 → 68
    KRAB; krueppel associated box
    COG5048
    Location:628 → 1044
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:940 → 960
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:8 → 47
    KRAB; KRAB box
    pfam13465
    Location:1009 → 1033
    zf-H2C2_2; Zinc-finger double domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    78672849..78704251
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054362706.1 → XP_054218681.1  zinc finger protein 658 isoform X1

    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02

  2. XM_054362704.1 → XP_054218679.1  zinc finger protein 658 isoform X1

    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02

  3. XM_054362705.1 → XP_054218680.1  zinc finger protein 658 isoform X1

    UniProtKB/Swiss-Prot
    Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5TYW1.2 GenPept UniProtKB/Swiss-Prot:Q5TYW1

Gene LinkOut

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