LOCUS       NM_001318241            1563 bp    mRNA    linear   PRI 09-JUN-2024
DEFINITION  Homo sapiens thymus, brain and testes associated (TBATA),
            transcript variant 1, mRNA.
ACCESSION   NM_001318241 XM_011539481
VERSION     NM_001318241.2
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 1563)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   2  (bases 1 to 1563)
  AUTHORS   Sigg,M.A., Menchen,T., Lee,C., Johnson,J., Jungnickel,M.K.,
            Choksi,S.P., Garcia,G. 3rd, Busengdal,H., Dougherty,G.W.,
            Pennekamp,P., Werner,C., Rentzsch,F., Florman,H.M., Krogan,N.,
            Wallingford,J.B., Omran,H. and Reiter,J.F.
  TITLE     Evolutionary Proteomics Uncovers Ancient Associations of Cilia with
            Signaling Pathways
  JOURNAL   Dev Cell 43 (6), 744-762 (2017)
   PUBMED   29257953
REFERENCE   3  (bases 1 to 1563)
  AUTHORS   Espinosa,G., Collado,J.A., Scholz,E., Mestre-Ferrer,A., Kuse,N.,
            Takiguchi,M., Carrascal,M., Canals,F., Pujol-Borrell,R.,
            Jaraquemada,D. and Alvarez,I.
  TITLE     Peptides presented by HLA class I molecules in the human thymus
  JOURNAL   J Proteomics 94, 23-36 (2013)
   PUBMED   24029068
REFERENCE   4  (bases 1 to 1563)
  AUTHORS   Flomerfelt,F.A., El Kassar,N., Gurunathan,C., Chua,K.S.,
            League,S.C., Schmitz,S., Gershon,T.R., Kapoor,V., Yan,X.Y.,
            Schwartz,R.H. and Gress,R.E.
  TITLE     Tbata modulates thymic stromal cell proliferation and thymus
            function
  JOURNAL   J Exp Med 207 (11), 2521-2532 (2010)
   PUBMED   20937703
  REMARK    GeneRIF: Functional analysis of the orthologous mouse protein.
REFERENCE   5  (bases 1 to 1563)
  AUTHORS   Saade,M., Irla,M., Yammine,M., Boulanger,N., Victorero,G.,
            Vincentelli,R., Penninger,J.M., Hollander,G.A., Chauvet,S. and
            Nguyen,C.
  TITLE     Spatial (Tbata) expression in mature medullary thymic epithelial
            cells
  JOURNAL   Eur J Immunol 40 (2), 530-538 (2010)
   PUBMED   19918778
  REMARK    GeneRIF: Functional analysis of the orthologous mouse protein.
REFERENCE   6  (bases 1 to 1563)
  AUTHORS   Goertsches,R., Baranzini,S.E., Morcillo,C., Nos,C., Camina,M.,
            Oksenberg,J.R., Montalban,X. and Comabella,M.
  TITLE     Evidence for association of chromosome 10 open reading frame
            (C10orf27) gene polymorphisms and multiple sclerosis
  JOURNAL   Mult Scler 14 (3), 412-414 (2008)
   PUBMED   18208870
  REMARK    GeneRIF: C10orf27 is a candidate gene for multiple sclerosis
            susceptibility and pathogenesis
            GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   7  (bases 1 to 1563)
  AUTHORS   Irla,M., Saade,M., Fernandez,C., Chasson,L., Victorero,G.,
            Dahmane,N., Chazal,G. and Nguyen,C.
  TITLE     Neuronal distribution of spatial in the developing cerebellum and
            hippocampus and its somatodendritic association with the kinesin
            motor KIF17
  JOURNAL   Exp Cell Res 313 (20), 4107-4119 (2007)
   PUBMED   17961552
  REMARK    GeneRIF: Functional analysis of the orthologous mouse protein.
REFERENCE   8  (bases 1 to 1563)
  AUTHORS   Saade,M., Irla,M., Govin,J., Victorero,G., Samson,M. and Nguyen,C.
  TITLE     Dynamic distribution of Spatial during mouse spermatogenesis and
            its interaction with the kinesin KIF17b
  JOURNAL   Exp Cell Res 313 (3), 614-626 (2007)
   PUBMED   17196196
  REMARK    GeneRIF: Functional analysis of the orthologous mouse protein.
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL358817.19.
            
            On Jan 31, 2020 this sequence version replaced NM_001318241.1.
            
            Summary: This gene encodes a protein that regulates thymic
            epithelial cell proliferation and thymus size. It has been
            identified as a ligand for the class I human leukocyte antigen
            (HLA-I) in thymus. Studies of the orthologous mouse protein suggest
            that it may also play a role in spermatid differentiation, as well
            as in neuronal morphogenesis and synaptic plasticity. Polymorphisms
            in this gene are associated with susceptibility for multiple
            sclerosis (MS). Alternative splicing results in multiple transcript
            variants. [provided by RefSeq, Dec 2015].
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC144694.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1968968,
                                           SAMEA2144120 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000456372.4/ ENSP00000400224.3
            RefSeq Select criteria :: based on manual assertion, conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-93                AL358817.19        110400-110492       c
            94-220              AL358817.19        109762-109888       c
            221-407             AL358817.19        108454-108640       c
            408-643             AL358817.19        106916-107151       c
            644-793             AL358817.19        104708-104857       c
            794-873             AL358817.19        103672-103751       c
            874-1059            AL358817.19        102268-102453       c
            1060-1141           AL358817.19        100304-100385       c
            1142-1286           AL358817.19        99328-99472         c
            1287-1339           AL358817.19        97629-97681         c
            1340-1563           AL358817.19        96353-96576         c
FEATURES             Location/Qualifiers
     source          1..1563
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="10"
                     /map="10q22.1"
     gene            1..1563
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /note="thymus, brain and testes associated"
                     /db_xref="GeneID:219793"
                     /db_xref="HGNC:HGNC:23511"
                     /db_xref="MIM:612640"
     exon            1..93
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            94..220
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            221..407
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     CDS             367..1425
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /note="isoform a is encoded by transcript variant 1;
                     stromal protein associated with thymii and lymph node
                     homolog; thymus, brain and testes-associated protein;
                     protein TBATA"
                     /codon_start=1
                     /product="protein TBATA isoform a"
                     /protein_id="NP_001305170.1"
                     /db_xref="CCDS:CCDS81471.1"
                     /db_xref="GeneID:219793"
                     /db_xref="HGNC:HGNC:23511"
                     /db_xref="MIM:612640"
                     /translation="MATDVQLADYPLMSPKAELKLEKKSGRKPRSPRDSGPQKELVIP
                     GIVDFERIRRALRTPKPQTPGTYCFGRLSHHSFFSRHHPHPQHVTHIQDLTGKPVCVV
                     RDFPAPLPESTVFSGCQMGIPTISVPIGDPQSNRNPQLSSEAWKKELKELASRVAFLT
                     KEDELKKKEQKEQKEEPLREQGAKYSAETGRLIPASTRAVGRRRSHQGQQSQSSSRHE
                     GVQAFLLQDQELLVLELLCRILETDLLSAIQFWLLYAPPKEKDLALGLLQTAVAQLLP
                     QPLVSIPTEKLLSQLPEVHEPPQEKQEPPCSQSPKKTKISPFTKSEKPEYIGEAQVLQ
                     MHSSQNTEKKTSKPRAES"
     exon            408..643
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            644..793
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            794..873
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            874..1059
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            1060..1141
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            1142..1286
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            1287..1339
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     exon            1340..1563
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1542..1547
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /note="hexamer: AATAAA"
     polyA_site      1563
                     /gene="TBATA"
                     /gene_synonym="C10orf27; SPATIAL"
                     /note="major polyA site"
ORIGIN      
        1 gaacccacag ccttcccctc gatttgtcct cttgctcctt cctgctagga cagcagggct
       61 tctcgtacac atgctgtagc gggcactgcc ttggcaggag gatttggggc ttccacatat
      121 cctgttctca agattgtagc atctcagtac tctagagccc agtacctgac atcaaggatg
      181 tctggagctt ccttttaagg aaagaaaaga tcagcaaact tgcctgttcc cgtttacact
      241 tccaccacca gttcgtgaga gttcctgttc tgcatcctca acactagtat taagtgagag
      301 ttcctgttct gcatcctcaa cgctagtatt aagtgcactg gcctttagtc tgttaaaaag
      361 catacaatgg ctacagatgt tcaattggct gattatccac tgatgagtcc aaaggctgag
      421 ctgaaactgg agaagaagtc agggcgcaag ccaaggagcc ccagggacag tgggccacag
      481 aaagaactgg tgatcccagg gattgtggat ttcgagcgga tccgccgggc attgaggacc
      541 ccaaagcccc aaacccctgg cacctactgc tttggacgcc tcagtcacca ctccttcttc
      601 tcccggcacc acccacaccc ccagcacgtg acccacatcc aagatctcac cgggaagcct
      661 gtctgtgtcg tcagggattt tccagccccc ttgcctgagt caactgtctt ttccggctgt
      721 caaatgggga tacccaccat ctctgtcccc attggagacc cacagtctaa tcggaacccc
      781 cagctttctt ctgaagcctg gaagaaggag ttgaaggagc tagcttcccg ggtggccttc
      841 ctcaccaagg aggatgaact gaagaagaaa gagcagaagg agcagaagga ggagcctctg
      901 cgggagcagg gggcaaagta ctcagcagag actgggaggc tcatccccgc ttccacccgg
      961 gctgtcggcc gccgcagatc tcaccagggc cagcagagtc agtcttccag cagacatgaa
     1021 ggagtccagg ctttcctcct tcaggatcag gagctgctgg tcctggagct cctgtgtcgg
     1081 atcctggaaa cagacttgct aagcgcaatc cagttctggc tgctctacgc tccgcccaag
     1141 gaaaaagacc tcgctctggg actcctgcag acagcagtgg ctcagctcct tccccagccc
     1201 ctagtctcca tccctacaga aaagctccta agccagcttc cagaagtgca tgaacctcct
     1261 caagagaagc aagagccacc ctgcagtcaa tccccgaaga aaacgaagat atcacctttt
     1321 acaaaaagcg aaaaaccaga gtacattgga gaagctcaag tcctccagat gcattcaagc
     1381 cagaacacag agaagaagac atcgaagccg agggcagaga gctgaggggc cctaacactt
     1441 gcacctgcct tgctcaagag cagccccaag ggttcagggg tgtttctgtc tccaccacct
     1501 tcacagcagt acctgattcc ctaccgtgaa aactcttact aaataaaacc gtcttccctg
     1561 aga
//
