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    ZFYVE21 zinc finger FYVE-type containing 21 [ Homo sapiens (human) ]

    Gene ID: 79038, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ZFYVE21provided by HGNC
    Official Full Name
    zinc finger FYVE-type containing 21provided by HGNC
    Primary source
    HGNC:HGNC:20760
    See related
    Ensembl:ENSG00000100711 MIM:613504; AllianceGenome:HGNC:20760
    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
    ZF21; HCVP7TP1
    Summary
    Predicted to enable metal ion binding activity. Predicted to be located in endosome and focal adhesion. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in fat (RPKM 36.0), endometrium (RPKM 31.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See ZFYVE21 in Genome Data Viewer
    Location:
    14q32.33
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (103715810..103733664)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (97951867..97969731)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (104182147..104200001)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370688 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9109 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6163 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6164 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6165 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6166 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6167 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:104106328-104106828 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6168 Neighboring gene kinesin light chain 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:104140157-104140656 Neighboring gene MPRA-validated peak2255 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9110 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:104172251-104172810 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:104172811-104173372 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:104180589-104181274 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6170 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6171 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6172 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6173 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6174 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:104184511-104185021 Neighboring gene X-ray repair cross complementing 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:104187639-104188139 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:104209353-104210134 Neighboring gene protein phosphatase 1 regulatory subunit 13B Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6175 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:104260985-104261486 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:104261487-104261986 Neighboring gene small nucleolar RNA SNORD51 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9111 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9112 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6176 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6177 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6178 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6179 Neighboring gene PPP1R13B divergent transcript

    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. ZF21 protein regulates cell adhesion and motility. Nagano M, et al. J Biol Chem, 2010 Jul 2. PMID 20439989, Free PMC Article
    2. ZFYVE21 is a complement-induced Rab5 effector that activates non-canonical NF-κB via phosphoinosotide remodeling of endosomes. Fang C, et al. Nat Commun, 2019 May 21. PMID 31113953, Free PMC Article
    3. The phosphoinositide-binding protein ZF21 regulates ECM degradation by invadopodia. Hoshino D, et al. PLoS One, 2013. PMID 23382803, Free PMC Article
    4. ZF21 protein, a regulator of the disassembly of focal adhesions and cancer metastasis, contains a novel noncanonical pleckstrin homology domain. Nagano M, et al. J Biol Chem, 2011 Sep 9. PMID 21768110, Free PMC Article
    5. ZFYVE21 promotes endothelial nitric oxide signaling and vascular barrier function in the kidney during aging. Jiang Q, et al. Kidney Int, 2024 Sep. PMID 38797325,

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. ZFYVE21 promotes endothelial nitric oxide signaling and vascular barrier function in the kidney during aging.
      Title: ZFYVE21 promotes endothelial nitric oxide signaling and vascular barrier function in the kidney during aging.
    2. ZFYVE21 is identified as a posttranslationally induced Rab5 effector that triggers phosphoinositide remodeling of early endosome membranes to mediate non-canonical NF-kappaB signal activation and tissue inflammation.
      Title: ZFYVE21 is a complement-induced Rab5 effector that activates non-canonical NF-κB via phosphoinosotide remodeling of endosomes.
    3. this study demonstrates that ZF21 is a key player regulating multiple aspects of cancer cell migration and invasion.
      Title: The phosphoinositide-binding protein ZF21 regulates ECM degradation by invadopodia.
    4. the C-terminal region is important for the ability of ZF21 to induce disassembly of FAs and cell migration
      Title: ZF21 protein, a regulator of the disassembly of focal adhesions and cancer metastasis, contains a novel noncanonical pleckstrin homology domain.
    5. ZF21 is a new regulator of focal adhesion disassembly and a potential member of the spreading initiation center. We identified 45 proteins including FA-related proteins and multiple RNA binding proteins
      Title: ZF21 is a new regulator of focal adhesion disassembly and a potential member of the spreading initiation center.
    6. Observational study and meta-analysis of gene-disease association. (HuGE Navigator)
      Title: Single-nucleotide polymorphisms in DNA-repair genes and cutaneous melanoma.
    7. Observational study of gene-disease association. (HuGE Navigator)
      Title: Association between genetic variants in VEGF, ERCC3 and occupational benzene haematotoxicity.
    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
    Biological insights from 108 schizophrenia-associated genetic loci.
    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

    • MGC2550

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in focal adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger FYVE domain-containing protein 21
    Names
    FYVE domain containing 21
    HCV p7-transactivated protein 1
    zinc finger, FYVE domain containing 21

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001198953.2 → NP_001185882.1  zinc finger FYVE domain-containing protein 21 isoform 1

      See identical proteins and their annotated locations for NP_001185882.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK057816, AL049840, CA311020, CX786145
      Consensus CDS
      CCDS55948.1
      UniProtKB/Swiss-Prot
      Q9BQ24
      Related
      ENSP00000216602.6, ENST00000216602.10
      Conserved Domains (2) summary
      cd15727
      Location:38 → 101
      FYVE_ZF21; FYVE domain found in zinc finger FYVE domain-containing protein 21 (ZF21) and similar proteins
      pfam16696
      Location:108 → 247
      ZFYVE21_C; Zinc finger FYVE domain-containing protein 21 C-terminus

    2. NM_024071.4 → NP_076976.1  zinc finger FYVE domain-containing protein 21 isoform 2

      See identical proteins and their annotated locations for NP_076976.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      BC005999, CA311020
      Consensus CDS
      CCDS9985.1
      UniProtKB/Swiss-Prot
      A8K3A4, Q86T05, Q96LT1, Q9BQ24
      Related
      ENSP00000310543.2, ENST00000311141.7
      Conserved Domains (2) summary
      cd15727
      Location:38 → 101
      FYVE_ZF21; FYVE domain found in zinc finger FYVE domain-containing protein 21 (ZF21) and similar proteins
      pfam16696
      Location:108 → 229
      ZFYVE21_C; Zinc finger FYVE domain-containing protein 21 C-terminus

    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_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      103715810..103733664
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      97951867..97969731
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BQ24.1 GenPept UniProtKB/Swiss-Prot:Q9BQ24

    Gene LinkOut

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

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