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    ZNF490 zinc finger protein 490 [ Homo sapiens (human) ]

    Gene ID: 57474, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ZNF490provided by HGNC
    Official Full Name
    zinc finger protein 490provided by HGNC
    Primary source
    HGNC:HGNC:23705
    See related
    Ensembl:ENSG00000188033 MIM:620118; AllianceGenome:HGNC:23705
    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
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 1.3), spleen (RPKM 1.3) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF490 in Genome Data Viewer
    Location:
    19p13.2-p13.13
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (12576100..12610813, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (12704509..12735153, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (12686914..12721627, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 88 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:12663347-12663848 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:12663849-12664348 Neighboring gene long intergenic non-protein coding RNA 2926 Neighboring gene phosphoglycerate kinase 1, pseudogene 2 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr19:12690738-12691937 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14058 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10153 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14059 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14060 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:12724145-12724645 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10154 Neighboring gene vomeronasal 2 receptor 16 pseudogene Neighboring gene zinc finger protein 791 Neighboring gene uncharacterized LOC105372279 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:12750843-12751363 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr19:12754106-12755305 Neighboring gene ribosomal protein L10 pseudogene 16

    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. Propensity score-based nonparametric test revealing genetic variants underlying bipolar disorder. Jiang Y, et al. Genet Epidemiol, 2011 Feb. PMID 21254220, Free PMC Article
    2. Prediction of the coding sequences of unidentified human genes. XV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. Nagase T, et al. DNA Res, 1999 Oct 29. PMID 10574462
    3. Disrupted in Schizophrenia 1 Interactome: evidence for the close connectivity of risk genes and a potential synaptic basis for schizophrenia. Camargo LM, et al. Mol Psychiatry, 2007 Jan. PMID 17043677
    4. Acetylation-Mimic Mutation of TRIM28-Lys304 to Gln Attenuates the Interaction with KRAB-Zinc-Finger Proteins and Affects Gene Expression in Leukemic K562 Cells. Chang YJ, et al. Int J Mol Sci, 2023 Jun 6. PMID 37372979, Free PMC Article
    5. Systematic identification of pathological lamin A interactors. Dittmer TA, et al. Mol Biol Cell, 2014 May. PMID 24623722, Free PMC Article

    See all (17) 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

    EBI GWAS Catalog

    Description
    Propensity score-based nonparametric test revealing genetic variants underlying bipolar disorder.
    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)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA1198

    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    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 490

    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_020714.3 → NP_065765.1  zinc finger protein 490

      See identical proteins and their annotated locations for NP_065765.1

      Status: VALIDATED

      Source sequence(s)
      AB033024, AC010422
      Consensus CDS
      CCDS12272.1
      UniProtKB/Swiss-Prot
      Q9ULM2
      Related
      ENSP00000311521.6, ENST00000311437.11
      Conserved Domains (3) summary
      COG5048
      Location:192 → 505
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:392 → 412
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:56 → 97
      KRAB; KRAB box

    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
      12576100..12610813 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      12704509..12735153 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9ULM2.2 GenPept UniProtKB/Swiss-Prot:Q9ULM2

    Gene LinkOut

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

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