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

Gene ID: 400713, updated on 2-Nov-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, Nov 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 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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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See Variation Viewer (GRCh37.p13)

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.

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