LOCUS       NM_001002760            1206 bp    mRNA    linear   PRI 03-FEB-2024
DEFINITION  Homo sapiens basic charge Y-linked 2B (BPY2B), mRNA.
ACCESSION   NM_001002760
VERSION     NM_001002760.1
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1206)
  AUTHORS   Chen,S., Zhang,Q., Chu,L., Chang,C., Chen,Y., Bao,Z., Peng,W.,
            Zhang,L., Li,S., Liu,C., Zhu,H., Yu,F., Chen,X., Jiang,L., Lu,D.,
            Jiang,Z., Jin,L. and Xu,C.
  TITLE     Comprehensive copy number analysis of Y chromosome-linked loci for
            detection of structural variations and diagnosis of male
            infertility
  JOURNAL   J Hum Genet 67 (2), 107-114 (2022)
   PUBMED   34462535
REFERENCE   2  (bases 1 to 1206)
  AUTHORS   Repping,S., van Daalen,S.K., Korver,C.M., Brown,L.G.,
            Marszalek,J.D., Gianotten,J., Oates,R.D., Silber,S., van der
            Veen,F., Page,D.C. and Rozen,S.
  TITLE     A family of human Y chromosomes has dispersed throughout northern
            Eurasia despite a 1.8-Mb deletion in the azoospermia factor c
            region
  JOURNAL   Genomics 83 (6), 1046-1052 (2004)
   PUBMED   15177557
REFERENCE   3  (bases 1 to 1206)
  AUTHORS   Wong,E.Y., Tse,J.Y., Yao,K.M., Lui,V.C., Tam,P.C. and Yeung,W.S.
  TITLE     Identification and characterization of human VCY2-interacting
            protein: VCY2IP-1, a microtubule-associated protein-like protein
  JOURNAL   Biol Reprod 70 (3), 775-784 (2004)
   PUBMED   14627543
REFERENCE   4  (bases 1 to 1206)
  AUTHORS   Tse,J.Y., Wong,E.Y., Cheung,A.N., O,W.S., Tam,P.C. and Yeung,W.S.
  TITLE     Specific expression of VCY2 in human male germ cells and its
            involvement in the pathogenesis of male infertility
  JOURNAL   Biol Reprod 69 (3), 746-751 (2003)
   PUBMED   12724276
  REMARK    GeneRIF: VCY2 was weakly expressed at the spermatogonia and
            immunonegative in spermatocytes and round spermatids in testicular
            biopsy specimens with maturation arrest or hypospermatogenesis.
REFERENCE   5  (bases 1 to 1206)
  AUTHORS   Skaletsky,H., Kuroda-Kawaguchi,T., Minx,P.J., Cordum,H.S.,
            Hillier,L., Brown,L.G., Repping,S., Pyntikova,T., Ali,J., Bieri,T.,
            Chinwalla,A., Delehaunty,A., Delehaunty,K., Du,H., Fewell,G.,
            Fulton,L., Fulton,R., Graves,T., Hou,S.F., Latrielle,P.,
            Leonard,S., Mardis,E., Maupin,R., McPherson,J., Miner,T., Nash,W.,
            Nguyen,C., Ozersky,P., Pepin,K., Rock,S., Rohlfing,T., Scott,K.,
            Schultz,B., Strong,C., Tin-Wollam,A., Yang,S.P., Waterston,R.H.,
            Wilson,R.K., Rozen,S. and Page,D.C.
  TITLE     The male-specific region of the human Y chromosome is a mosaic of
            discrete sequence classes
  JOURNAL   Nature 423 (6942), 825-837 (2003)
   PUBMED   12815422
REFERENCE   6  (bases 1 to 1206)
  AUTHORS   Wong,E.Y., Tse,J.Y., Yao,K.M., Tam,P.C. and Yeung,W.S.
  TITLE     VCY2 protein interacts with the HECT domain of ubiquitin-protein
            ligase E3A
  JOURNAL   Biochem Biophys Res Commun 296 (5), 1104-1111 (2002)
   PUBMED   12207887
  REMARK    GeneRIF: VCY2 protein interacts with the HECT domain of
            ubiquitin-protein ligase E3A
REFERENCE   7  (bases 1 to 1206)
  AUTHORS   Lahn,B.T. and Page,D.C.
  TITLE     Functional coherence of the human Y chromosome
  JOURNAL   Science 278 (5338), 675-680 (1997)
   PUBMED   9381176
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC010153.3.
            
            Summary: 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
            more centromeric copy within the palindrome. [provided by RefSeq,
            Jul 2008].
            
            CCDS Note: This CCDS ID represents the protein described in PMIDs:
            12724276 and 12207887. It should be noted this transcript is
            predicted to undergo nonsense-mediated mRNA decay (NMD). However,
            the protein is represented because it was detected endogenously in
            PMID: 12724276. Three nearly identical copies of this gene exist on
            chromosome Y; two copies are part of a palindromic region. This
            record represents the more centromeric copy within the palindrome.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMEA1968968,
                              SAMEA2148874 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000382392.5/ ENSP00000371829.1
            NMD candidate          :: translation inferred from conservation
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-31                AC010153.3         70760-70790
            32-154              AC010153.3         71066-71188
            155-291             AC010153.3         74254-74390
            292-410             AC010153.3         78800-78918
            411-528             AC010153.3         80978-81095
            529-634             AC010153.3         83950-84055
            635-759             AC010153.3         84748-84872
            760-884             AC010153.3         91423-91547
            885-1206            AC010153.3         91642-91963
FEATURES             Location/Qualifiers
     source          1..1206
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="Y"
                     /map="Yq11.23"
     gene            1..1206
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /note="basic charge Y-linked 2B"
                     /db_xref="GeneID:442867"
                     /db_xref="HGNC:HGNC:25449"
     exon            1..31
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     exon            32..154
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     exon            155..291
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     exon            292..410
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     CDS             333..653
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /note="basic protein on Y chromosome 2; variable charge,
                     Y-linked, 2; basic charge, Y-linked 2; variably charged
                     protein Y 2"
                     /codon_start=1
                     /product="testis-specific basic protein Y 2"
                     /protein_id="NP_001002760.1"
                     /db_xref="CCDS:CCDS44029.1"
                     /db_xref="GeneID:442867"
                     /db_xref="HGNC:HGNC:25449"
                     /translation="MMTLVPRARTRAGQDHYSHPCPRFSQVLLTEGIMTYCLTKNLSD
                     VNILHRLLKNGNVRNTLLQSKVGLLTYYVKLYPGEVTLLTRPSIQMRLCCITGSVSRP
                     RSQK"
     exon            411..528
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     exon            529..634
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     exon            635..759
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     exon            760..884
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     exon            885..1206
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1182..1187
                     /regulatory_class="polyA_signal_sequence"
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
     polyA_site      1206
                     /gene="BPY2B"
                     /gene_synonym="VCY2B"
ORIGIN      
        1 aatatctcag gacccaggac catgtgatat gggcccaaca cctggatgat gttactcttc
       61 tgcctaggtc atgcgtaaag agggaattag ggcatattgc ttggcccagt cccgtaatga
      121 tatgactctc ctgcttgtgc cagagccaca gaagtgtgct tggtgacata atctttgagg
      181 ctgtcacatc accaagatta tattgtatca ctggaccagc ataaagctga cacttctgac
      241 tatgcccagc cttcaaataa tactacactg tataattggc tcaacaccca ggtgatattg
      301 ttccatttac ctgagaccag ataaaaagcc taatgatgac gcttgtcccc agagccagga
      361 cacgtgcagg acaggatcat tactctcatc cctgccccag attttcacag gtgctgctta
      421 cagagggcat catgacatat tgcttgacaa agaacctaag tgatgttaat attctgcata
      481 ggttgctaaa aaatgggaat gtgagaaata ccttgcttca gtccaaagtg ggcttgctga
      541 catattatgt gaaactgtac ccgggtgaag tgactcttct gactaggccc agcatacaaa
      601 tgagattatg ctgtatcact ggctcagtgt cgaggcccag atcacagaag taattgtgcc
      661 atatgtggaa caagcagcta agcaatagat aacatccatc gtggctctgc cttcaaaggg
      721 aaattttaca tatgtcactg ggaccatcac ccagatgatg tcctgcccac taaaagaatt
      781 gtgacataac gctgactgca aaaactgggt aatgcaactc tcctctttat tctggagtct
      841 gccaaaacaa gggattatca catattgcgg agtccagcac ccaggtaaaa ttttgtcata
      901 tacccagctt cagataccat gcaataatac aactatcata cctggaccca aagaggagag
      961 atattttgat tctcattgcc attcttatgg ccacaagcaa agtaatggtt ctcatagtgg
     1021 tataaagttc acacagtatt atgacactcc cagcgtatca tagaaaatgt gagtagtaca
     1081 atgagtgtta taacagggaa cagcaaacca atgctattgt gattattgga ttcacaccca
     1141 gctgacgcga ctatcattct ctcacaagaa cagaacctgc aaataaagta ctaaatctca
     1201 ccaaaa
//
