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Aliases for VCX3A Gene

Aliases for VCX3A Gene

  • Variable Charge, X-Linked 3A 2 3
  • Variable Charge Protein On X With Eight Repeats 3 4
  • Variably Charged Protein X-A 3 4
  • VCX-8r 3 4
  • VCX-A 3 4
  • VCX8R 3 4
  • VCX3 3 4
  • VCXA 3 4
  • Variable Charge, X-Linked 3 2
  • Variably Charged X-A 3

External Ids for VCX3A Gene

Previous HGNC Symbols for VCX3A Gene

  • VCX3

Previous GeneCards Identifiers for VCX3A Gene

  • GC0XP007622
  • GC0XP007623
  • GC0XM006461

Summaries for VCX3A Gene

Entrez Gene Summary for VCX3A Gene

  • 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 Y-linked members are two identical copies of the gene within a palindromic region on Yq11. The family members share a high degree of sequence identity, with the exception that a 30-bp 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. VCX/Y genes encode small and highly charged proteins of unknown function. The presence of a putative bipartite nuclear localization signal suggests that VCX/Y members are nuclear proteins. This gene contains 8 repeats of the 30-bp unit. [provided by RefSeq, Jul 2008]

GeneCards Summary for VCX3A Gene

VCX3A (Variable Charge, X-Linked 3A) is a Protein Coding gene. Diseases associated with VCX3A include ichthyosis, x-linked and non-syndromic x-linked intellectual disability. An important paralog of this gene is VCY1B.

UniProtKB/Swiss-Prot for VCX3A Gene

  • May mediate a process in spermatogenesis or may play a role in sex ratio distortion

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VCX3A Gene

Genomics for VCX3A Gene

Regulatory Elements for VCX3A Gene

Genomic Location for VCX3A Gene

Chromosome:
X
Start:
6,533,618 bp from pter
End:
6,535,118 bp from pter
Size:
1,501 bases
Orientation:
Minus strand

Genomic View for VCX3A Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for VCX3A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VCX3A Gene

Proteins for VCX3A Gene

  • Protein details for VCX3A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NNX9-VCX3_HUMAN
    Recommended name:
    Variable charge X-linked protein 3
    Protein Accession:
    Q9NNX9
    Secondary Accessions:
    • Q9P0H4

    Protein attributes for VCX3A Gene

    Size:
    186 amino acids
    Molecular mass:
    20020 Da
    Quaternary structure:
    No Data Available

neXtProt entry for VCX3A Gene

Proteomics data for VCX3A Gene at MOPED

Post-translational modifications for VCX3A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VCX3A Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for VCX3A Gene

Domains & Families for VCX3A Gene

Gene Families for VCX3A Gene

Protein Domains for VCX3A Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for VCX3A Gene

Graphical View of Domain Structure for InterPro Entry

Q9NNX9

UniProtKB/Swiss-Prot:

VCX3_HUMAN :
  • Belongs to the VCX/VCY family.
Family:
  • Belongs to the VCX/VCY family.
genes like me logo Genes that share domains with VCX3A: view

Function for VCX3A Gene

Molecular function for VCX3A Gene

UniProtKB/Swiss-Prot Function:
May mediate a process in spermatogenesis or may play a role in sex ratio distortion

Phenotypes for VCX3A Gene

GenomeRNAi human phenotypes for VCX3A:
genes like me logo Genes that share phenotypes with VCX3A: view

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VCX3A

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for VCX3A Gene

Localization for VCX3A Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for VCX3A Gene COMPARTMENTS Subcellular localization image for VCX3A gene
Compartment Confidence
nucleus 4
vacuole 1

Gene Ontology (GO) - Cellular Components for VCX3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS --
GO:0005730 nucleolus ISS --
genes like me logo Genes that share ontologies with VCX3A: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for VCX3A Gene

Pathways & Interactions for VCX3A Gene

SuperPathways for VCX3A Gene

No Data Available

Interacting Proteins for VCX3A Gene

Gene Ontology (GO) - Biological Process for VCX3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007420 brain development IMP 10903929
genes like me logo Genes that share ontologies with VCX3A: view

No data available for Pathways by source and SIGNOR curated interactions for VCX3A Gene

Drugs & Compounds for VCX3A Gene

No Compound Related Data Available

Transcripts for VCX3A Gene

mRNA/cDNA for VCX3A Gene

(2) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(10) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for VCX3A Gene

Variable charge, X-linked 3A:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VCX3A

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for VCX3A Gene

No ASD Table

Relevant External Links for VCX3A Gene

GeneLoc Exon Structure for
VCX3A
ECgene alternative splicing isoforms for
VCX3A

Expression for VCX3A Gene

mRNA expression in normal human tissues for VCX3A Gene

mRNA differential expression in normal tissues according to GTEx for VCX3A Gene

This gene is overexpressed in Testis (x49.5).

SOURCE GeneReport for Unigene cluster for VCX3A Gene Hs.170076

mRNA Expression by UniProt/SwissProt for VCX3A Gene

Q9NNX9-VCX3_HUMAN
Tissue specificity: Expressed exclusively in testis
genes like me logo Genes that share expression patterns with VCX3A: view

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for VCX3A Gene

Orthologs for VCX3A Gene

Evolution for VCX3A Gene

ENSEMBL:
Gene Tree for VCX3A (if available)
TreeFam:
Gene Tree for VCX3A (if available)

No data available for Orthologs for VCX3A Gene

Paralogs for VCX3A Gene

Paralogs for VCX3A Gene

(5) SIMAP similar genes for VCX3A Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with VCX3A: view

Variants for VCX3A Gene

Sequence variations from dbSNP and Humsavar for VCX3A Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type MAF
rs1058244 -- 6,533,737(-) GGCCA(A/C/G/T)CTACT utr-variant-3-prime
rs1058245 -- 6,533,720(-) TCTCC(A/C/G/T)AGAGC utr-variant-3-prime
rs1058246 -- 6,533,719(-) CTCCG(A/T)GAGCA utr-variant-3-prime
rs1058247 -- 6,533,711(-) GCAGC(A/G)ACTAA utr-variant-3-prime
rs3198862 -- 6,533,702(-) AAGTT(A/C/G/T)AGGCC utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for VCX3A Gene

Variant ID Type Subtype PubMed ID
esv2422345 CNV Duplication 17116639
esv2422493 CNV Duplication 17116639
dgv265e55 CNV Gain 17911159
dgv2434e1 CNV Complex 17122850
nsv511080 CNV Complex 20534489
nsv508751 CNV Insertion 20534489
nsv6783 CNV Insertion 18451855
nsv199 CNV Insertion 15895083

Variation tolerance for VCX3A Gene

Gene Damage Index Score: 4.20; 61.94% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VCX3A Gene

HapMap Linkage Disequilibrium report
VCX3A
Human Gene Mutation Database (HGMD)
VCX3A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VCX3A Gene

Disorders for VCX3A Gene

MalaCards: The human disease database

(2) MalaCards diseases for VCX3A Gene - From: DISEASES and NovoSeek

Disorder Aliases PubMed IDs
ichthyosis, x-linked
  • x-linked ichthyosis
non-syndromic x-linked intellectual disability
  • mrx
- elite association
Search VCX3A in MalaCards View complete list of genes associated with diseases

Relevant External Links for VCX3A

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VCX3A
genes like me logo Genes that share disorders with VCX3A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VCX3A Gene

Publications for VCX3A Gene

  1. Analysis of the VCX3A, VCX2 and VCX3B genes shows that VCX3A gene deletion is not sufficient to result in mental retardation in X-linked ichthyosis. (PMID: 18076704) Cuevas-Covarrubias S.A. … GonzA!lez-Huerta L.M. (Br. J. Dermatol. 2008) 23 67
  2. Normal intelligence and social interactions in a male patient despite the deletion of NLGN4X and the VCX genes. (PMID: 18194880) Mochel F. … Moncla A. (Eur J Med Genet 2008) 23 67
  3. Deletions of VCX-A and NLGN4: a variable phenotype including normal intellect. (PMID: 17391250) Macarov M. … Meiner V. (J Intellect Disabil Res 2007) 23 67
  4. Molecular cytogenetic analysis of a familial interstitial deletion Xp22.2-22.3 with a highly variable phenotype in female carriers. (PMID: 16470742) Chocholska S. … Kehrer-Sawatzki H. (Am. J. Med. Genet. A 2006) 23 67
  5. Deletion of VCX-A due to NAHR plays a major role in the occurrence of mental retardation in patients with X-linked ichthyosis. (PMID: 15888481) Van Esch H. … Froyen G. (Hum. Mol. Genet. 2005) 23 67

Products for VCX3A Gene

Sources for VCX3A Gene

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