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

    Gene ID: 7760, updated on 10-Dec-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
    mouse all
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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_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (3135029..3142804)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (3161505..3169417)
    RS_2024_09 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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Identification and characterization of a zinc finger gene (ZNF213) from 16p13.3. Chen X, et al. Biochim Biophys Acta, 1999 Feb 16. PMID 10023065
    2. 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
    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 (17) 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)

    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
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    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_2024_08

    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

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