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VCX3B variable charge X-linked 3B [ Homo sapiens (human) ]

Gene ID: 425054, updated on 4-Oct-2022

Summary

Official Symbol
VCX3Bprovided by HGNC
Official Full Name
variable charge X-linked 3Bprovided by HGNC
Primary source
HGNC:HGNC:31838
See related
Ensembl:ENSG00000205642 MIM:300981; AllianceGenome:HGNC:31838
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
VCXC; VCX-C
Summary
This gene belongs to the VCX/Y gene family, which has multiple members on both X and Y chromosomes, and all are expressed exclusively in male germ cells. The X-linked members are clustered on chromosome Xp22, and the Y-linked members are two identical copies of the gene within a palindromic region on chromosome Yq11. The family members share a high degree of sequence identity, with the exception that a 30-nt unit is tandemly repeated in X-linked members but occurs only once in Y-linked members. The VCX gene cluster is polymorphic in terms of copy number; different individuals may have a different number of VCX genes. This family member, as represented by the reference genome allele, contains 14 copies of the 30-nt repeat unit. VCX/Y genes encode small and highly charged proteins containing putative bipartite nuclear localization signals. Although the exact function of this family member has yet to be determined, a role in mRNA stability regulation can be inferred from the ability of the highly similar family member, VCX-A, to inhibit mRNA decapping. A possible role in the regulation of ribosome assembly during spermatogenesis has also been suggested. [provided by RefSeq, Aug 2010]
Expression
Restricted expression toward testis (RPKM 26.5) See more
Orthologs
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Genomic context

See VCX3B in Genome Data Viewer
Location:
Xp22.31
Exon count:
3
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (8464830..8466510)
110 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (8031418..8032978)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (8432871..8434551)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985675 Neighboring gene S232-VCX2 recombination region Neighboring gene uncharacterized LOC107985676 Neighboring gene variable charge X-linked 2 Neighboring gene uncharacterized LOC107985715 Neighboring gene anosmin 1

Genomic regions, transcripts, and products

Expression

  • 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

General gene information

Markers

Homology

Clone Names

  • MGC119815

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in brain development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in nucleolus ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
variable charge X-linked protein 3B
Names
variably charged protein X-C

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_001001888.4NP_001001888.3  variable charge X-linked protein 3B

    See identical proteins and their annotated locations for NP_001001888.3

    Status: REVIEWED

    Source sequence(s)
    AA883225, AC006062, AF167080, BC098143
    Consensus CDS
    CCDS48077.2
    UniProtKB/Swiss-Prot
    Q4KN12, Q9H321
    Related
    ENSP00000370420.1, ENST00000381032.6
    Conserved Domains (1) summary
    pfam15231
    Location:1141
    VCX_VCY; Variable charge X/Y family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    8464830..8466510
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    8031418..8032978
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)