LOCUS       NM_001001888            1175 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens variable charge X-linked 3B (VCX3B), mRNA.
ACCESSION   NM_001001888
VERSION     NM_001001888.4
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 1175)
  AUTHORS   Need,A.C., Attix,D.K., McEvoy,J.M., Cirulli,E.T., Linney,K.L.,
            Hunt,P., Ge,D., Heinzen,E.L., Maia,J.M., Shianna,K.V., Weale,M.E.,
            Cherkas,L.F., Clement,G., Spector,T.D., Gibson,G. and
            Goldstein,D.B.
  TITLE     A genome-wide study of common SNPs and CNVs in cognitive
            performance in the CANTAB
  JOURNAL   Hum Mol Genet 18 (23), 4650-4661 (2009)
   PUBMED   19734545
REFERENCE   2  (bases 1 to 1175)
  AUTHORS   Jiao,X., Chen,H., Chen,J., Herrup,K., Firestein,B.L. and
            Kiledjian,M.
  TITLE     Modulation of neuritogenesis by a protein implicated in X-linked
            mental retardation
  JOURNAL   J Neurosci 29 (40), 12419-12427 (2009)
   PUBMED   19812318
REFERENCE   3  (bases 1 to 1175)
  AUTHORS   Cuevas-Covarrubias,S.A. and Gonzalez-Huerta,L.M.
  TITLE     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
  JOURNAL   Br J Dermatol 158 (3), 483-486 (2008)
   PUBMED   18076704
REFERENCE   4  (bases 1 to 1175)
  AUTHORS   Hansen,M.A., Nielsen,J.E., Retelska,D., Larsen,N. and Leffers,H.
  TITLE     A shared promoter region suggests a common ancestor for the human
            VCX/Y, SPANX, and CSAG gene families and the murine CYPT family
  JOURNAL   Mol Reprod Dev 75 (2), 219-229 (2008)
   PUBMED   17342728
REFERENCE   5  (bases 1 to 1175)
  AUTHORS   Chocholska,S., Rossier,E., Barbi,G. and Kehrer-Sawatzki,H.
  TITLE     Molecular cytogenetic analysis of a familial interstitial deletion
            Xp22.2-22.3 with a highly variable phenotype in female carriers
  JOURNAL   Am J Med Genet A 140 (6), 604-610 (2006)
   PUBMED   16470742
REFERENCE   6  (bases 1 to 1175)
  AUTHORS   Van Esch,H., Hollanders,K., Badisco,L., Melotte,C., Van
            Hummelen,P., Vermeesch,J.R., Devriendt,K., Fryns,J.P., Marynen,P.
            and Froyen,G.
  TITLE     Deletion of VCX-A due to NAHR plays a major role in the occurrence
            of mental retardation in patients with X-linked ichthyosis
  JOURNAL   Hum Mol Genet 14 (13), 1795-1803 (2005)
   PUBMED   15888481
REFERENCE   7  (bases 1 to 1175)
  AUTHORS   Zou,S.W., Zhang,J.C., Zhang,X.D., Miao,S.Y., Zong,S.D., Sheng,Q.
            and Wang,L.F.
  TITLE     Expression and localization of VCX/Y proteins and their possible
            involvement in regulation of ribosome assembly during
            spermatogenesis
  JOURNAL   Cell Res 13 (3), 171-177 (2003)
   PUBMED   12862317
REFERENCE   8  (bases 1 to 1175)
  AUTHORS   Balaresque,P., Toupance,B., Heyer,E. and Crouau-Roy,B.
  TITLE     Evolutionary dynamics of duplicated microsatellites shared by sex
            chromosomes
  JOURNAL   J Mol Evol 57 Suppl 1, S128-S137 (2003)
   PUBMED   15008409
REFERENCE   9  (bases 1 to 1175)
  AUTHORS   Fukami,M., Kirsch,S., Schiller,S., Richter,A., Benes,V., Franco,B.,
            Muroya,K., Rao,E., Merker,S., Niesler,B., Ballabio,A., Ansorge,W.,
            Ogata,T. and Rappold,G.A.
  TITLE     A member of a gene family on Xp22.3, VCX-A, is deleted in patients
            with X-linked nonspecific mental retardation
  JOURNAL   Am J Hum Genet 67 (3), 563-573 (2000)
   PUBMED   10903929
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF167080.2, BC098143.1,
            AC006062.5 and AA883225.1.
            
            On May 17, 2019 this sequence version replaced NM_001001888.3.
            
            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].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            CDS exon combination :: ERR279864.2365.1, HY028987.1 [ECO:0000331]
            RNAseq introns       :: single sample supports all introns
                                    SAMEA2159080, SAMEA2161674 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000381032.6/ ENSP00000370420.1
            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
            1-350               AF167080.2         1-350
            351-589             BC098143.1         69-307
            590-1146            AC006062.5         113375-113931       c
            1147-1175           AA883225.1         9-37                c
FEATURES             Location/Qualifiers
     source          1..1175
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /map="Xp22.31"
     gene            1..1175
                     /gene="VCX3B"
                     /gene_synonym="VCX-C; VCXC"
                     /note="variable charge X-linked 3B"
                     /db_xref="GeneID:425054"
                     /db_xref="HGNC:HGNC:31838"
                     /db_xref="MIM:300981"
     exon            1..161
                     /gene="VCX3B"
                     /gene_synonym="VCX-C; VCXC"
                     /inference="alignment:Splign:2.1.0"
     exon            162..409
                     /gene="VCX3B"
                     /gene_synonym="VCX-C; VCXC"
                     /inference="alignment:Splign:2.1.0"
     CDS             308..1048
                     /gene="VCX3B"
                     /gene_synonym="VCX-C; VCXC"
                     /note="variably charged protein X-C"
                     /codon_start=1
                     /product="variable charge X-linked protein 3B"
                     /protein_id="NP_001001888.3"
                     /db_xref="CCDS:CCDS48077.2"
                     /db_xref="GeneID:425054"
                     /db_xref="HGNC:HGNC:31838"
                     /db_xref="MIM:300981"
                     /translation="MSPKPRASGPPAKAKEAGKRKSSSQPSPSDPKKKTTKVAKKGKA
                     VRRGRRGKKGAATKMAAVTAPEAESGPAAPGPSDQPSQELPQHELPPEEPVSEGTQHD
                     PLSQESELEEPLSQESEVEEPLSQESQVEEPLSQESEVEEPLSQESQVEEPLSQESEV
                     EEPLSQESEVEEPLSQESQVEEPLSQESEVEEPLSQESQVEEPLSQESEMEEPLSQES
                     QVEEPLSQESEMEEPLSQESEMEELPSV"
     exon            410..1175
                     /gene="VCX3B"
                     /gene_synonym="VCX-C; VCXC"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1155..1160
                     /regulatory_class="polyA_signal_sequence"
                     /gene="VCX3B"
                     /gene_synonym="VCX-C; VCXC"
                     /note="hexamer: AATGAA"
     polyA_site      1175
                     /gene="VCX3B"
                     /gene_synonym="VCX-C; VCXC"
                     /note="major polyA site"
ORIGIN      
        1 atgtggatgc tgggagaagt atgtgagatg gaaaagttgt ttcatggcat ccaagaagtg
       61 aatgatcctc aaggtgtagc agaggaattt gtaggagaga gggatgattg acatcttcgt
      121 gtagccctcc atccatccca gttagcatgg agggatttta gggctaccat tggctgggta
      181 gtggagtgtt gaccaatcac agctcagggg cgtgattgtc tcgtcctggg atcgcgagag
      241 gtgtatatac agggaggcca ggcagcctgg agttagtcga ccgttgcgag acgttgagct
      301 gcggaagatg agtccaaagc cgagagcctc gggacctccg gccaaggcca aggaggcagg
      361 aaagaggaag tcctcctctc agccgagccc cagtgacccg aagaagaaga ctaccaaggt
      421 ggccaagaag ggaaaagcag ttcgtagagg gagacgcggg aagaaagggg ctgcgacaaa
      481 gatggcggcc gtgacggcac ctgaggcgga gagcgggcca gcggcacccg gccccagcga
      541 ccagcccagc caggagctcc ctcagcacga gctgccgccg gaggagccag tgagcgaggg
      601 gacccagcac gaccccctga gtcaggagag cgagctggag gaaccactga gtcaggagag
      661 cgaggtggaa gaaccactga gtcaggagag ccaggtggag gaaccactga gtcaggagag
      721 cgaggtggaa gaaccactga gtcaggagag ccaggtggag gaaccactga gtcaggagag
      781 cgaggtggag gaaccactga gtcaggagag cgaggtggaa gaaccactga gtcaggagag
      841 ccaggtggag gaaccactga gtcaggagag cgaggtggaa gaaccactga gtcaggagag
      901 ccaggtggag gaaccactga gtcaggagag cgagatggaa gaaccactga gtcaggagag
      961 ccaggtggag gaaccactga gtcaggagag cgagatggaa gaaccactga gtcaggagag
     1021 cgagatggaa gaactaccga gtgtgtagac ggccaagtac tcccctatct ccgagagcag
     1081 cgactaagtt caggcccagc cgccagacct cagagatctc accagcgggg tgcttgccat
     1141 tctgatgata ataaaatgaa tgtgttgcaa attga
//
