LOCUS       NM_001406117            1896 bp    mRNA    linear   ROD 04-FEB-2025
DEFINITION  Mus musculus transformer 2 alpha (Tra2a), transcript variant 4,
            mRNA.
ACCESSION   NM_001406117
VERSION     NM_001406117.1
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1896)
  AUTHORS   Shen,C.L., Tsai,Y.Y., Chou,S.J., Chang,Y.M. and Tarn,W.Y.
  TITLE     RBM4-mediated intron excision of Hsf1 induces BDNF for cerebellar
            foliation
  JOURNAL   Commun Biol 7 (1), 1712 (2024)
   PUBMED   39738787
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1896)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   3  (bases 1 to 1896)
  AUTHORS   Zhou,J., Wang,R., Zhang,J., Zhu,L., Liu,W., Lu,S., Chen,P., Li,H.,
            Yin,B., Yuan,J., Qiang,B., Shu,P. and Peng,X.
  TITLE     Conserved expression of ultra-conserved noncoding RNA in mammalian
            nervous system
  JOURNAL   Biochim Biophys Acta Gene Regul Mech 1860 (12), 1159-1168 (2017)
   PUBMED   29055695
REFERENCE   4  (bases 1 to 1896)
  AUTHORS   Liu,Y., Nie,H., Liu,C., Zhai,X., Sang,Q., Wang,Y., Shi,D., Wang,L.
            and Xu,Z.
  TITLE     Angulin proteins ILDR1 and ILDR2 regulate alternative pre-mRNA
            splicing through binding to splicing factors TRA2A, TRA2B, or SRSF1
  JOURNAL   Sci Rep 7 (1), 7466 (2017)
   PUBMED   28785060
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1896)
  AUTHORS   Storbeck,M., Hupperich,K., Gaspar,J.A., Meganathan,K., Martinez
            Carrera,L., Wirth,R., Sachinidis,A. and Wirth,B.
  TITLE     Neuronal-specific deficiency of the splicing factor Tra2b causes
            apoptosis in neurogenic areas of the developing mouse brain
  JOURNAL   PLoS One 9 (2), e89020 (2014)
   PUBMED   24586484
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1896)
  AUTHORS   Chen,X., Li,J., Wu,K., Han,Y. and Xu,P.
  TITLE     Tra2alpha promotes RA induced neural differentiation of P19 cells
  JOURNAL   Neurochem Res 30 (2), 271-275 (2005)
   PUBMED   15895831
REFERENCE   7  (bases 1 to 1896)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
REFERENCE   8  (bases 1 to 1896)
  AUTHORS   Yamamoto,I., Tsukada,A., Saito,N. and Shimada,K.
  TITLE     cDNA cloning and mRNA expression of Transformer 2 (Tra 2) in
            chicken embryo
  JOURNAL   Biochim Biophys Acta 1579 (2-3), 185-188 (2002)
   PUBMED   12427554
REFERENCE   9  (bases 1 to 1896)
  AUTHORS   Seong,J.Y., Han,J., Park,S., Wuttke,W., Jarry,H. and Kim,K.
  TITLE     Exonic splicing enhancer-dependent splicing of the
            gonadotropin-releasing hormone premessenger ribonucleic acid is
            mediated by tra2alpha, a 40-kilodalton serine/arginine-rich protein
  JOURNAL   Mol Endocrinol 16 (11), 2426-2438 (2002)
   PUBMED   12403832
  REMARK    GeneRIF: exonic splicing enhancer-dependent splicing of GnRH mRNA
            is mediated by tra2alpha
REFERENCE   10 (bases 1 to 1896)
  AUTHORS   Lieberman,A.P., Friedlich,D.L., Harmison,G., Howell,B.W.,
            Jordan,C.L., Breedlove,S.M. and Fischbeck,K.H.
  TITLE     Androgens regulate the mammalian homologues of invertebrate sex
            determination genes tra-2 and fox-1
  JOURNAL   Biochem Biophys Res Commun 282 (2), 499-506 (2001)
   PUBMED   11401487
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC158667.8.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR17784648.35722.1 [ECO:0000332]
            RNAseq introns              :: partial sample support SAMN00849382,
                                           SAMN01164131 [ECO:0000350]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-196               AC158667.8         177873-178068       c
            197-277             AC158667.8         177535-177615       c
            278-411             AC158667.8         166417-166550       c
            412-577             AC158667.8         164892-165057       c
            578-766             AC158667.8         163021-163209       c
            767-882             AC158667.8         160884-160999       c
            883-1017            AC158667.8         159511-159645       c
            1018-1085           AC158667.8         158903-158970       c
            1086-1896           AC158667.8         157956-158766       c
FEATURES             Location/Qualifiers
     source          1..1896
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 23.84 cM"
     gene            1..1896
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /note="transformer 2 alpha"
                     /db_xref="GeneID:101214"
                     /db_xref="MGI:MGI:1933972"
     exon            1..196
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     CDS             161..1096
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /note="isoform 4 is encoded by transcript variant 4;
                     nuclear transformer-2 alpha; transformer-2 protein homolog
                     alpha; transformer-2 protein homolog A; transformer 2
                     alpha homolog"
                     /codon_start=1
                     /product="transformer-2 protein homolog alpha isoform 4"
                     /protein_id="NP_001393046.1"
                     /db_xref="GeneID:101214"
                     /db_xref="MGI:MGI:1933972"
                     /translation="MSDVEENNFEGRLPISAPRCGSPARWGRRRRGAPSGRIVESRSQ
                     SKSPTGTPARVKSESRSGSRSPSRVSKHSESHSRSRSKSRSRSRRHSHRRYTRSRSHS
                     HRRRSRSRSYTPEYRRRRSRSHSPMSNRRRHTGSRVCANPDPNTCLGVFGLSLYTTER
                     DLREVFSRYGPLSGVNVVYDQRTGRSRGFAFVYFERIDDSKEAMERANGMELDGRRIR
                     VDYSITKRAHTPTPGIYMGRPTHSGGGGGGGGGGGGGGGGGGRRRDSYYDRGYDRGYD
                     RYEDYDYRYRRRSPSPYYSRYRSRSRSRSYSPRRY"
     exon            197..277
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     exon            278..411
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     exon            412..577
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     exon            578..766
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     exon            767..882
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     exon            883..1017
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     exon            1018..1085
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     exon            1086..1896
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1874..1879
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /note="hexamer: AATAAA"
     polyA_site      1896
                     /gene="Tra2a"
                     /gene_synonym="1500010G04Rik; G430041M01Rik; mAWMS1; TRA-2
                     alpha; TRA2-alpha; Tra2alpha"
                     /note="major polyA site"
ORIGIN      
        1 gccattttgc ctgaacgtgc gagctggtgg gagtggaacg cactggccgt tgtagccgtc
       61 gccttcttcc tccccacagt ccgaacagcg cggtgactag gccgtcggcc ctcgagccga
      121 gacatatctc ttatttagtt ctcgggagcg cctggccgac atgagtgatg tagaggagaa
      181 caacttcgag ggcagacttc ccatctctgc tccgaggtgc gggtccccgg cgcggtgggg
      241 caggaggcgg cggggcgctc cctccggccg gatagtggag tctcgctctc agtcaaaatc
      301 tccaacggga actcctgctc gtgtaaaatc agagagcagg tcaggatctc gtagtccatc
      361 acgggtgtcc aaacattctg aatcccattc tcgatcaaga tcaaagtcca ggtcaaggtc
      421 aaggaggcat tcgcatagac gctacactcg atccaggtca cactctcata ggagacgatc
      481 tcggagtagg tcctatacac ccgagtatag gcggcggagg agccggagtc actctccaat
      541 gtctaatcgc agaaggcata ctggaagcag ggtatgtgca aacccagatc ccaacacttg
      601 cttgggagta tttggcctca gtttgtacac aacagagaga gatcttcgtg aagtgttttc
      661 tcgatatgga cctctgagtg gtgttaatgt agtttatgat cagcgaactg ggaggtcacg
      721 tggatttgct tttgtgtatt ttgagagaat agatgactct aaggaggcta tggagagagc
      781 aaatgggatg gagctggacg gtagaagaat ccgtgtggat tattctatca ccaagagagc
      841 gcacacaccc acaccaggca tttacatggg cagaccaact cacagcggtg gtggaggtgg
      901 cggaggagga ggtggcggag gaggaggtgg tggcggtggt agacgacgag attcttacta
      961 cgatagagga tatgatcgag gctatgacag atacgaagat tatgattacc ggtacagaag
     1021 aaggtcgccc tctccttact acagtcgcta caggtcacga tcgagatccc gttcctatag
     1081 tccaagacgc tattgatact ggagtgattg tgcccgagga ctttgctttt tcttcttttt
     1141 gattttggat tcccaagctt ccatgcttcc tagtccttta aaccaaaacc aaacaacctg
     1201 gtttatttaa tctctgcctg accagttgtg ttgctgtttc caccctttgt tatactctaa
     1261 aggtgtaatt gtcttttcag tagtgaacat cctgagtgaa agggagcccg ggttctgctt
     1321 tgtggttctt ctttgccttt acagaggatt gacttcttat ttgaggacag aaaccatctt
     1381 ttgaaaactt tttctgatgg atattgtggt agacattaga aatctgtggt atgataaact
     1441 gctttttaat cttcttgggg aaggtaaata acactttaag taggtcagtc atgccagctt
     1501 tgtctggagt ggcatggagc agttgaatag ttgagtgtag aatgtttgaa gctctaggag
     1561 aaaatgtggg acatttcttt tgaagaatat aactttgaac ctaagaatta agtcaccttt
     1621 tagaaattaa aagcttgtaa ttcctataag acatgttgta tttgaattta catgttaaac
     1681 cttataaact taaagtgtga tttttatgtt aaatttacag aaacttaagt attcccttaa
     1741 tcactgaagg acaaccttta tttattaact agaacaattg tataacttgc tgttagaaat
     1801 tttggtattg ggacattggt tacatgggtt attgtatagg atcctaaaat acatgtgggg
     1861 aagagtaatt tcaaataaaa gttaatttga aaatgg
//
