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Aliases for BPY2 Gene

Aliases for BPY2 Gene

  • Basic Charge Y-Linked 2 2 3
  • Variably Charged Protein Y 2 3 4
  • BPY2A 3 4
  • VCY2A 3 4
  • VCY2 3 4
  • Testis-Specific Basic Protein On Y, 2 3
  • Testis-Specific Basic Protein Y 2 3
  • Basic Protein On Y Chromosome 2 3
  • Variable Charge, Y-Linked, 2 3
  • Basic Charge, Y-Linked, 2 5
  • Basic Charge, Y-Linked 2 4
  • VCY2B 4
  • VCY2C 4

External Ids for BPY2 Gene

Previous HGNC Symbols for BPY2 Gene

  • VCY2

Previous GeneCards Identifiers for BPY2 Gene

  • GC0YU900229
  • GC0YP023468
  • GC0YP023539
  • GC0YP025130

Summaries for BPY2 Gene

Entrez Gene Summary for BPY2 Gene

  • This gene is located in the nonrecombining portion of the Y chromosome, and expressed specifically in testis. The encoded protein interacts with ubiquitin protein ligase E3A and may be involved in male germ cell development and male infertility. Three nearly identical copies of this gene exist on chromosome Y; two copies are part of a palindromic region. This record represents the copy outside of the palidromic region. [provided by RefSeq, Jul 2008]

GeneCards Summary for BPY2 Gene

BPY2 (Basic Charge Y-Linked 2) is a Protein Coding gene. Diseases associated with BPY2 include Spermatogenic Failure, Y-Linked, 2 and Male Infertility. Gene Ontology (GO) annotations related to this gene include HECT domain binding. An important paralog of this gene is BPY2B.

Gene Wiki entry for BPY2 Gene

Additional gene information for BPY2 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for BPY2 Gene

Genomics for BPY2 Gene

Genomic Locations for BPY2 Gene

Genomic Locations for BPY2 Gene
31,647 bases
Plus strand
31,647 bases
Plus strand

Genomic View for BPY2 Gene

Genes around BPY2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
BPY2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for BPY2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for BPY2 Gene

No data available for GeneHancer (GH) Regulatory Elements for BPY2 Gene

Proteins for BPY2 Gene

  • Protein details for BPY2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Testis-specific basic protein Y 2
    Protein Accession:

    Protein attributes for BPY2 Gene

    106 amino acids
    Molecular mass:
    12063 Da
    Quaternary structure:
    • Interacts with MAP1S. Interacts with UBE3A (via HECT domain).
    • Interacts with MAP1S. Interacts with UBE3A (via HECT domain).
    • Interacts with MAP1S. Interacts with UBE3A (via HECT domain).

neXtProt entry for BPY2 Gene

Post-translational modifications for BPY2 Gene

No Post-translational modifications

Other Protein References for BPY2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for BPY2 Gene

Domains & Families for BPY2 Gene

Gene Families for BPY2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for BPY2 Gene


Graphical View of Domain Structure for InterPro Entry



  • Belongs to the VCX/VCY family.
  • Belongs to the VCX/VCY family.
genes like me logo Genes that share domains with BPY2: view

No data available for Suggested Antigen Peptide Sequences for BPY2 Gene

Function for BPY2 Gene

Molecular function for BPY2 Gene

GENATLAS Biochemistry:
basic protein on chromosome Y,2,testis specific,1,testis specific,in the AZFC deleted region

Gene Ontology (GO) - Molecular Function for BPY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 14627543
GO:0032399 HECT domain binding IPI 12207887
genes like me logo Genes that share ontologies with BPY2: view
genes like me logo Genes that share phenotypes with BPY2: view

Human Phenotype Ontology for BPY2 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

CRISPR Products

miRNA for BPY2 Gene

miRTarBase miRNAs that target BPY2

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for BPY2

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Animal Models , Transcription Factor Targets and HOMER Transcription for BPY2 Gene

Localization for BPY2 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for BPY2 gene
Compartment Confidence
nucleus 4

Gene Ontology (GO) - Cellular Components for BPY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 12724276
genes like me logo Genes that share ontologies with BPY2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for BPY2 Gene

Pathways & Interactions for BPY2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for BPY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007283 spermatogenesis IMP 12724276
GO:0007338 single fertilization TAS 9381176
genes like me logo Genes that share ontologies with BPY2: view

No data available for Pathways by source and SIGNOR curated interactions for BPY2 Gene

Drugs & Compounds for BPY2 Gene

No Compound Related Data Available

Transcripts for BPY2 Gene

mRNA/cDNA for BPY2 Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(4) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for BPY2 Gene

Basic charge, Y-linked, 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for BPY2

Alternative Splicing Database (ASD) splice patterns (SP) for BPY2 Gene

No ASD Table

Relevant External Links for BPY2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for BPY2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for BPY2 Gene

mRNA differential expression in normal tissues according to GTEx for BPY2 Gene

This gene is overexpressed in Testis (x53.0).

Protein differential expression in normal tissues from HIPED for BPY2 Gene

This gene is overexpressed in Kidney (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for BPY2 Gene

Protein tissue co-expression partners for BPY2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of BPY2 Gene:


SOURCE GeneReport for Unigene cluster for BPY2 Gene:


mRNA Expression by UniProt/SwissProt for BPY2 Gene:

Tissue specificity: Expressed exclusively in testis. Expressed in ejaculated spermatozoa of germ cell. Expressed in the nuclei of spermatogonia, spermatocytes, and round spermatids, except elongated spermatids (at protein level).
genes like me logo Genes that share expression patterns with BPY2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for BPY2 Gene

Orthologs for BPY2 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for BPY2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia BPY2 34 34
  • 98 (a)
Species where no ortholog for BPY2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for BPY2 Gene

Gene Tree for BPY2 (if available)
Gene Tree for BPY2 (if available)

Paralogs for BPY2 Gene

Paralogs for BPY2 Gene

genes like me logo Genes that share paralogs with BPY2: view

Variants for BPY2 Gene

Sequence variations from dbSNP and Humsavar for BPY2 Gene

SNP ID Clin Chr 0Y pos Variation AA Info Type
rs163701 -- 22,986,148(+) G/C intron_variant
rs163702 -- 22,991,755(+) A/G intron_variant
rs163704 -- 22,998,928(+) G/A intron_variant
rs163705 -- 23,000,507(+) A/G intron_variant
rs163706 -- 23,001,064(+) G/A/C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for BPY2 Gene

Variant ID Type Subtype PubMed ID
dgv2560e212 CNV gain 25503493
dgv2568e212 CNV gain 25503493
dgv2569e212 CNV loss 25503493
dgv2573e212 CNV gain 25503493
dgv2575e212 CNV gain 25503493
dgv2576e212 CNV loss 25503493
esv3575148 CNV loss 25503493
esv3575157 CNV loss 25503493
esv3575178 CNV loss 25503493
esv3575179 CNV loss 25503493
esv3577610 CNV gain 25503493
esv3577644 CNV gain 25503493
esv3577645 CNV gain 25503493
esv3577652 CNV gain 25503493
nsv10034 CNV loss 18304495
nsv442825 CNV gain+loss 18776908
nsv442826 CNV gain+loss 18776908
nsv469740 CNV gain+loss 16826518
nsv515230 CNV loss 21397061
nsv515231 CNV loss 21397061

Additional Variant Information for BPY2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for BPY2 Gene

Disorders for BPY2 Gene

MalaCards: The human disease database

(3) MalaCards diseases for BPY2 Gene - From: GTR, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
spermatogenic failure, y-linked, 2
  • spgfy2
male infertility
  • infertility male
male reproductive system disease
  • genital diseases, male
- elite association - COSMIC cancer census association via MalaCards
Search BPY2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for BPY2

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with BPY2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for BPY2 Gene

Publications for BPY2 Gene

  1. VCY2 protein interacts with the HECT domain of ubiquitin-protein ligase E3A. (PMID: 12207887) Wong EY … Yeung WS (Biochemical and biophysical research communications 2002) 3 4 22 58
  2. Differential effect of specific gr/gr deletion subtypes on spermatogenesis in the Chinese Han population. (PMID: 20039973) Yang Y … Zhang S (International journal of andrology 2010) 3 44 58
  3. Alu sequence variants of the BPY2 gene in proven fertile and infertile men with Sertoli cell-only phenotype. (PMID: 17511727) Choi J … Namiki M (International journal of urology : official journal of the Japanese Urological Association 2007) 3 44 58
  4. Identification and characterization of human VCY2-interacting protein: VCY2IP-1, a microtubule-associated protein-like protein. (PMID: 14627543) Wong EY … Yeung WS (Biology of reproduction 2004) 3 4 58
  5. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PMID: 12815422) Skaletsky H … Page DC (Nature 2003) 3 4 58

Products for BPY2 Gene

Sources for BPY2 Gene

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