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ZNF213 zinc finger protein 213 [ Homo sapiens (human) ]

Gene ID: 7760, updated on 11-Apr-2024

Summary

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Official Symbol
ZNF213provided by HGNC
Official Full Name
zinc finger protein 213provided by HGNC
Primary source
HGNC:HGNC:13005
See related
Ensembl:ENSG00000085644 MIM:608387; AllianceGenome:HGNC:13005
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
Also known as
CR53; ZSCAN53; ZKSCAN21
Summary
C2H2 zinc finger proteins, such as ZNF213, have bipartite structures in which one domain binds DNA or RNA and the other modulates target gene expression.[supplied by OMIM, Apr 2004]
Expression
Broad expression in testis (RPKM 12.1), ovary (RPKM 4.1) and 24 other tissues See more
Orthologs
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Genomic context

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See ZNF213 in Genome Data Viewer
Location:
16p13.3
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (3135029..3142804)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (3161505..3169417)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (3185030..3192805)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ZNF205 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3163522-3164110 Neighboring gene zinc finger protein 205 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:3174278-3174547 Neighboring gene ZNF213 antisense RNA 1 (head to head) Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr16:3177693-3178243 Neighboring gene Sharpr-MPRA regulatory region 2057 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10304 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10305 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7119 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3188465-3188965 Neighboring gene caspase 16, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10306 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7120 Neighboring gene tRNA-Arg (anticodon CCG) 1-3

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. ZNF213 negatively controls triple negative breast cancer progression via Hippo/YAP signaling. Liu Y, et al. Cancer Sci, 2021 Jul. PMID 33939216, Free PMC Article
  2. Identification and characterization of a zinc finger gene (ZNF213) from 16p13.3. Chen X, et al. Biochim Biophys Acta, 1999 Feb 16. PMID 10023065
  3. A transcriptional Map of the FMF region. Bernot A, et al. Genomics, 1998 Jun 1. PMID 9653642
  4. Genome-wide association study of a heart failure related metabolomic profile among African Americans in the Atherosclerosis Risk in Communities (ARIC) study. Yu B, et al. Genet Epidemiol, 2013 Dec. PMID 23934736, Free PMC Article
  5. Why do cellular proteins linked to K63-polyubiquitin chains not associate with proteasomes? Nathan JA, et al. EMBO J, 2013 Feb 20. PMID 23314748, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ZNF213 negatively controls triple negative breast cancer progression via Hippo/YAP signaling.
    Title: ZNF213 negatively controls triple negative breast cancer progression via Hippo/YAP signaling.
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

EBI GWAS Catalog

Description
Genome-wide association study of a heart failure related metabolomic profile among African Americans in the Atherosclerosis Risk in Communities (ARIC) study.
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

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
  

General protein information

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Preferred Names
zinc finger protein 213
Names
putative transcription factor CR53
zinc finger protein with KRAB and SCAN domains 21

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_001134655.2 → NP_001128127.1  zinc finger protein 213

    See identical proteins and their annotated locations for NP_001128127.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate donor splice site at the first exon, hence has a different 5' UTR compared to variant 1. Transcript variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC108134, AK289834, AK291789, BC080572, BM974318, DA115503
    Consensus CDS
    CCDS10495.1
    UniProtKB/Swiss-Prot
    A8K1B9, B4DMG6, O14771, Q96IS1
    UniProtKB/TrEMBL
    A0A0S2Z4L6
    Related
    ENSP00000459177.1, ENST00000576416.5
    Conserved Domains (4) summary
    smart00431
    Location:41 → 145
    SCAN; leucine rich region
    cd07765
    Location:202 → 237
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:315 → 451
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:319 → 339
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. NM_004220.3 → NP_004211.1  zinc finger protein 213

    See identical proteins and their annotated locations for NP_004211.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the more predominant transcript. Transcript variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC108134, AK291789, BC080572, BM974318, DA811482
    Consensus CDS
    CCDS10495.1
    UniProtKB/Swiss-Prot
    A8K1B9, B4DMG6, O14771, Q96IS1
    UniProtKB/TrEMBL
    A0A0S2Z4L6
    Related
    ENSP00000380087.3, ENST00000396878.8
    Conserved Domains (4) summary
    smart00431
    Location:41 → 145
    SCAN; leucine rich region
    cd07765
    Location:202 → 237
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:315 → 451
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:319 → 339
    ZF_C2H2; C2H2 Zn finger [structural motif]

RNA

  1. NR_104432.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice junction at the 5' end of an exon compare to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC108134, AK055337, BC116445, DA811482
    Related
    ENST00000576863.1

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    3135029..3142804
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011522652.4 → XP_011520954.1  zinc finger protein 213 isoform X3

    Conserved Domains (3) summary
    smart00431
    Location:41 → 145
    SCAN; leucine rich region
    cd07765
    Location:202 → 237
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    pfam02023
    Location:41 → 127
    SCAN; SCAN domain

  2. XM_047434603.1 → XP_047290559.1  zinc finger protein 213 isoform X2

  3. XM_047434602.1 → XP_047290558.1  zinc finger protein 213 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    3161505..3169417
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054313872.1 → XP_054169847.1  zinc finger protein 213 isoform X4

    UniProtKB/Swiss-Prot
    A8K1B9, B4DMG6, O14771, Q96IS1
    UniProtKB/TrEMBL
    A0A0S2Z4L6

  2. XM_054313874.1 → XP_054169849.1  zinc finger protein 213 isoform X3

  3. XM_054313873.1 → XP_054169848.1  zinc finger protein 213 isoform X2

  4. XM_054313871.1 → XP_054169846.1  zinc finger protein 213 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O14771.2 GenPept UniProtKB/Swiss-Prot:O14771

Gene LinkOut

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