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    ZNF880 zinc finger protein 880 [ Homo sapiens (human) ]

    Gene ID: 400713, updated on 10-Dec-2024

    Summary

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    Official Symbol
    ZNF880provided by HGNC
    Official Full Name
    zinc finger protein 880provided by HGNC
    Primary source
    HGNC:HGNC:37249
    See related
    Ensembl:ENSG00000221923 AllianceGenome:HGNC:37249
    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, Dec 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 3.2), ovary (RPKM 2.5) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF880 in Genome Data Viewer
    Location:
    19q13.41
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (52366858..52397666)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (55457138..55472774)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (52873176..52889048)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc finger protein 766 Neighboring gene microRNA 643 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15044 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15045 Neighboring gene zinc finger protein 480 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:52841280-52841780 Neighboring gene zinc finger protein 610 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15046 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15047 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15048 Neighboring gene ZNF528 antisense RNA 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:52900414-52901613 Neighboring gene zinc finger protein 528 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:52923769-52924534 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:52924535-52925300 Neighboring gene developmental pluripotency associated 5 pseudogene 1

    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. Promoter hypermethylation and comprehensive regulation of ncRNA lead to the down-regulation of ZNF880, providing a new insight for the therapeutics and research of colorectal cancer. Dong X, et al. BMC Med Genomics, 2023 Jun 27. PMID 37370088, Free PMC Article
    2. Gene expression profile of human bone marrow stromal cells: high-throughput expressed sequence tag sequencing analysis. Jia L, et al. Genomics, 2002 Jan. PMID 11827452
    3. ARHGAP24 represses β-catenin transactivation-induced invasiveness in hepatocellular carcinoma mainly by acting as a GTPase-independent scaffold. Yang W, et al. Theranostics, 2022. PMID 36168627, Free PMC Article
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Promoter hypermethylation and comprehensive regulation of ncRNA lead to the down-regulation of ZNF880, providing a new insight for the therapeutics and research of colorectal cancer.
      Title: Promoter hypermethylation and comprehensive regulation of ncRNA lead to the down-regulation of ZNF880, providing a new insight for the therapeutics and research of colorectal cancer.
    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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    Markers

    Homology

    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
    		  
    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 880
    Names
    zinc finger protein LOC400713

    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_001145434.2 → NP_001138906.1  zinc finger protein 880

      See identical proteins and their annotated locations for NP_001138906.1

      Status: VALIDATED

      Source sequence(s)
      AF086165, AI754748, AK297834, DC419753
      Consensus CDS
      CCDS46164.1
      UniProtKB/Swiss-Prot
      B4DNA6, Q6PDB4
      Related
      ENSP00000406318.2, ENST00000422689.3
      Conserved Domains (6) summary
      smart00349
      Location:7 → 65
      KRAB; krueppel associated box
      COG5048
      Location:162 → 568
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:214 → 234
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:352 → 374
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:7 → 46
      KRAB; KRAB box
      pfam13465
      Location:366 → 391
      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
      52366858..52397666
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047438838.1 → XP_047294794.1  zinc finger protein 880 isoform X3

    2. XM_047438837.1 → XP_047294793.1  zinc finger protein 880 isoform X2

    3. XM_017026812.3 → XP_016882301.1  zinc finger protein 880 isoform X1

      UniProtKB/Swiss-Prot
      B4DNA6, Q6PDB4
      Conserved Domains (6) summary
      smart00349
      Location:7 → 65
      KRAB; krueppel associated box
      COG5048
      Location:162 → 568
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:214 → 234
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:352 → 374
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:7 → 46
      KRAB; KRAB box
      pfam13465
      Location:366 → 391
      zf-H2C2_2; Zinc-finger double domain

    RNA

    1. XR_007066826.1 RNA Sequence

    2. XR_001753688.3 RNA Sequence

    3. XR_007066827.1 RNA Sequence

    4. XR_001753689.3 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      55457138..55472774
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6PDB4.2 GenPept UniProtKB/Swiss-Prot:Q6PDB4

    Gene LinkOut

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

    Chemical Information
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