LOCUS       NM_013293               1785 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens transformer 2 alpha homolog (TRA2A), transcript
            variant 1, mRNA.
ACCESSION   NM_013293
VERSION     NM_013293.5
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 1785)
  AUTHORS   Khoroshkin,M., Buyan,A., Dodel,M., Navickas,A., Yu,J., Trejo,F.,
            Doty,A., Baratam,R., Zhou,S., Lee,S.B., Joshi,T., Garcia,K.,
            Choi,B., Miglani,S., Subramanyam,V., Modi,H., Carpenter,C.,
            Markett,D., Corces,M.R., Mardakheh,F.K., Kulakovskiy,I.V. and
            Goodarzi,H.
  TITLE     Systematic identification of post-transcriptional regulatory
            modules
  JOURNAL   Nat Commun 15 (1), 7872 (2024)
   PUBMED   39251607
  REMARK    Erratum:[Nat Commun. 2024 Oct 28;15(1):9277. doi:
            10.1038/s41467-024-52903-4.. PMID: 39468017]
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1785)
  AUTHORS   Cao,W., Lei,S., Zeng,Z., Xiao,C., Sun,B., Xie,P., Li,Y., Luo,D. and
            Yu,W.
  TITLE     Transformer 2 alpha homolog is a downstream gene of
            hypoxia-inducible factor 1 subunit alpha and is involved in the
            progression of pancreatic cancer
  JOURNAL   Bioengineered 13 (5), 13238-13251 (2022)
   PUBMED   35635094
  REMARK    GeneRIF: Transformer 2 alpha homolog is a downstream gene of
            hypoxia-inducible factor 1 subunit alpha and is involved in the
            progression of pancreatic cancer.
REFERENCE   3  (bases 1 to 1785)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   4  (bases 1 to 1785)
  AUTHORS   Liu,Q., Zhu,L., Liu,X., Zheng,J., Liu,Y., Ruan,X., Cao,S., Cai,H.,
            Li,Z. and Xue,Y.
  TITLE     TRA2A-induced upregulation of LINC00662 regulates blood-brain
            barrier permeability by affecting ELK4 mRNA stability in
            Alzheimer's microenvironment
  JOURNAL   RNA Biol 17 (9), 1293-1308 (2020)
   PUBMED   32372707
  REMARK    GeneRIF: TRA2A-induced upregulation of LINC00662 regulates
            blood-brain barrier permeability by affecting ELK4 mRNA stability
            in Alzheimer's microenvironment.
REFERENCE   5  (bases 1 to 1785)
  AUTHORS   Buljan,M., Ciuffa,R., van Drogen,A., Vichalkovski,A., Mehnert,M.,
            Rosenberger,G., Lee,S., Varjosalo,M., Pernas,L.E., Spegg,V.,
            Snijder,B., Aebersold,R. and Gstaiger,M.
  TITLE     Kinase Interaction Network Expands Functional and Disease Roles of
            Human Kinases
  JOURNAL   Mol Cell 79 (3), 504-520 (2020)
   PUBMED   32707033
REFERENCE   6  (bases 1 to 1785)
  AUTHORS   Gevaert,K., Staes,A., Van Damme,J., De Groot,S., Hugelier,K.,
            Demol,H., Martens,L., Goethals,M. and Vandekerckhove,J.
  TITLE     Global phosphoproteome analysis on human HepG2 hepatocytes using
            reversed-phase diagonal LC
  JOURNAL   Proteomics 5 (14), 3589-3599 (2005)
   PUBMED   16097034
REFERENCE   7  (bases 1 to 1785)
  AUTHORS   Jin,J., Smith,F.D., Stark,C., Wells,C.D., Fawcett,J.P.,
            Kulkarni,S., Metalnikov,P., O'Donnell,P., Taylor,P., Taylor,L.,
            Zougman,A., Woodgett,J.R., Langeberg,L.K., Scott,J.D. and Pawson,T.
  TITLE     Proteomic, functional, and domain-based analysis of in vivo 14-3-3
            binding proteins involved in cytoskeletal regulation and cellular
            organization
  JOURNAL   Curr Biol 14 (16), 1436-1450 (2004)
   PUBMED   15324660
REFERENCE   8  (bases 1 to 1785)
  AUTHORS   Shin,C., Feng,Y. and Manley,J.L.
  TITLE     Dephosphorylated SRp38 acts as a splicing repressor in response to
            heat shock
  JOURNAL   Nature 427 (6974), 553-558 (2004)
   PUBMED   14765198
REFERENCE   9  (bases 1 to 1785)
  AUTHORS   Tacke,R., Tohyama,M., Ogawa,S. and Manley,J.L.
  TITLE     Human Tra2 proteins are sequence-specific activators of pre-mRNA
            splicing
  JOURNAL   Cell 93 (1), 139-148 (1998)
   PUBMED   9546399
REFERENCE   10 (bases 1 to 1785)
  AUTHORS   Dauwalder,B., Amaya-Manzanares,F. and Mattox,W.
  TITLE     A human homologue of the Drosophila sex determination factor
            transformer-2 has conserved splicing regulatory functions
  JOURNAL   Proc Natl Acad Sci U S A 93 (17), 9004-9009 (1996)
   PUBMED   8799144
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BP376263.1, U53209.1 and
            AB097048.1.
            
            On Nov 23, 2018 this sequence version replaced NM_013293.4.
            
            Summary: This gene is a member of the transformer 2 homolog family
            and encodes a protein with several RRM (RNA recognition motif)
            domains. This phosphorylated nuclear protein binds to specific RNA
            sequences and plays a role in the regulation of pre-mRNA splicing.
            Alternatively spliced transcript variants have been found for this
            gene. [provided by RefSeq, Sep 2013].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            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 :: SRR3476690.463285.1,
                                           SRR5189655.158764.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968189, SAMEA2149178
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000297071.9/ ENSP00000297071.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-19                BP376263.1         52-70
            20-1400             U53209.1           20-1400
            1401-1785           AB097048.1         1402-1786
FEATURES             Location/Qualifiers
     source          1..1785
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7p15.3"
     gene            1..1785
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /note="transformer 2 alpha homolog"
                     /db_xref="GeneID:29896"
                     /db_xref="HGNC:HGNC:16645"
                     /db_xref="MIM:602718"
     exon            1..193
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     CDS             158..1006
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /note="isoform 1 is encoded by transcript variant 1;
                     transformer-2 protein homolog alpha; htra-2 alpha;
                     putative MAPK activating protein PM24; transformer-2
                     alpha; Tra2alpha; TRA2-alpha; TRA-2 alpha; transformer-2
                     protein homolog A"
                     /codon_start=1
                     /product="transformer-2 protein homolog alpha isoform 1"
                     /protein_id="NP_037425.1"
                     /db_xref="CCDS:CCDS5383.1"
                     /db_xref="GeneID:29896"
                     /db_xref="HGNC:HGNC:16645"
                     /db_xref="MIM:602718"
                     /translation="MSDVEENNFEGRESRSQSKSPTGTPARVKSESRSGSRSPSRVSK
                     HSESHSRSRSKSRSRSRRHSHRRYTRSRSHSHSHRRRSRSRSYTPEYRRRRSRSHSPM
                     SNRRRHTGSRANPDPNTCLGVFGLSLYTTERDLREVFSRYGPLSGVNVVYDQRTGRSR
                     GFAFVYFERIDDSKEAMERANGMELDGRRIRVDYSITKRAHTPTPGIYMGRPTHSGGG
                     GGGGGGGGGGGGGRRRDSYYDRGYDRGYDRYEDYDYRYRRRSPSPYYSRYRSRSRSRS
                     YSPRRY"
     exon            194..327
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     exon            328..493
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     exon            494..682
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     exon            683..798
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     exon            799..927
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     exon            928..995
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     exon            996..1785
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1543..1548
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /note="hexamer: AATACA"
     polyA_site      1566
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /note="major polyA site"
     regulatory      1762..1767
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /note="hexamer: AATAAA"
     polyA_site      1785
                     /gene="TRA2A"
                     /gene_synonym="AWMS1; HSU53209"
                     /note="major polyA site"
ORIGIN      
        1 attttgctgg agcctgcgac cgagtgggag tggagtggag cggctgtggt tgccgactct
       61 ttcctcttcc ccacggtcca gtcagcgggt taattaggcc atcggccctc gagccgagac
      121 ttgtctctta tttagttctg gggagcgcct cgtcgacatg agtgatgtgg aggaaaacaa
      181 cttcgagggc agagagtctc gctctcagtc aaaatctcca acgggaactc ctgctcgtgt
      241 aaaatcggag agcaggtcag gatctcgtag tccatcaagg gtttccaaac actctgaatc
      301 ccattctcga tcaagatcaa aatccaggtc gaggtcaagg agacattctc atagacgtta
      361 cactcgatcc agatcccact ctcactctca taggagacga tctcgaagta gatcatatac
      421 accagaatac cggcggcgaa ggagccgaag ccattctcca atgtctaacc ggagaagaca
      481 tactggcagc agggcaaatc cagatcccaa cacttgcctt ggagtgtttg gcctcagttt
      541 gtacacaaca gagagggatc ttcgtgaagt attttctcga tatggaccat tgagtggtgt
      601 caatgtggtt tatgatcagc gaactgggcg atctcgagga tttgcttttg tgtattttga
      661 gagaatagat gactcaaagg aggctatgga aagggcaaat ggaatggagc tggatggtag
      721 aagaattcgg gtggattatt ctataaccaa gagagcgcac acaccaacac caggcatcta
      781 catgggcaga ccaactcata gtggtggggg tggtggagga ggcggcggcg gtggaggtgg
      841 aggtggtggc agacgtcgag attcttacta tgatagagga tatgatcgtg ggtatgacag
      901 atatgaagac tatgattacc gatacagaag acgatcacct tctccttatt atagtcgata
      961 tagatcacga tcaagatctc gttcctacag cccaagacgc tattgataac ggaatggttg
     1021 caattaagga catttttttt cctctttttt tttttttttt ttttaattct gagatttccc
     1081 caagctgtgg attcttccta ctccttaaga aaaaaacttt ggtttattta gcatctacac
     1141 ttttgtcagt tgtgttgctg ttttccaccc attttattat actcttaaaa gatgtaattg
     1201 ttgtcatttt gaacagttaa acatcttgag tataaaaaga accccaatgt tatgttatgc
     1261 tttgtaaatt tttttttttg cttttaccta gataaacttc tagctaatca aataaggaaa
     1321 gaaactgtct ttttaaagct tcttttgtgt tagatactgt attagagatc tgcatttatc
     1381 atgagttcct tttttttttt aactttattt ttgggaaagt aacacatgaa gtagttcagt
     1441 catgtcaggt ttgtctgggg tggaatggaa cagtcaggta gttgaaagtt tttttttaga
     1501 gatgaaaagc ttgtgaactc ctgtaaaaca tgctgtattt gaaatacatc tgttaaaact
     1561 taaaaactaa agtgtgattt tttttgttgt tgttaagttt attgaagttt attcccttaa
     1621 tcagtgaagg acaaccctta tttattacct agagcagttg tataattcgc tgttagaaat
     1681 tttggtattg ggacagtgga taagcaggtt atcacatagc atagaattct taaaagatac
     1741 atgtggggaa aagtagtctc aaataaaagc taatttcttt gaaaa
//
