LOCUS       NM_016481               1577 bp    mRNA    linear   PRI 09-JUN-2024
DEFINITION  Homo sapiens tRNA methyltransferase O (TRMO), transcript variant 1,
            mRNA.
ACCESSION   NM_016481
VERSION     NM_016481.5
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 1577)
  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 1577)
  AUTHORS   Kimura,S., Miyauchi,K., Ikeuchi,Y., Thiaville,P.C.,
            Crecy-Lagard,Vd. and Suzuki,T.
  TITLE     Discovery of the beta-barrel-type RNA methyltransferase responsible
            for N6-methylation of N6-threonylcarbamoyladenosine in tRNAs
  JOURNAL   Nucleic Acids Res 42 (14), 9350-9365 (2014)
   PUBMED   25063302
REFERENCE   3  (bases 1 to 1577)
  AUTHORS   Eriksson,N., Tung,J.Y., Kiefer,A.K., Hinds,D.A., Francke,U.,
            Mountain,J.L. and Do,C.B.
  TITLE     Novel associations for hypothyroidism include known autoimmune risk
            loci
  JOURNAL   PLoS One 7 (4), e34442 (2012)
   PUBMED   22493691
REFERENCE   4  (bases 1 to 1577)
  AUTHORS   Letra,A., Menezes,R., Govil,M., Fonseca,R.F., McHenry,T.,
            Granjeiro,J.M., Castilla,E.E., Orioli,I.M., Marazita,M.L. and
            Vieira,A.R.
  TITLE     Follow-up association studies of chromosome region 9q and
            nonsyndromic cleft lip/palate
  JOURNAL   Am J Med Genet A 152A (7), 1701-1710 (2010)
   PUBMED   20583170
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   5  (bases 1 to 1577)
  AUTHORS   Takahashi,M., Saenko,V.A., Rogounovitch,T.I., Kawaguchi,T.,
            Drozd,V.M., Takigawa-Imamura,H., Akulevich,N.M., Ratanajaraya,C.,
            Mitsutake,N., Takamura,N., Danilova,L.I., Lushchik,M.L.,
            Demidchik,Y.E., Heath,S., Yamada,R., Lathrop,M., Matsuda,F. and
            Yamashita,S.
  TITLE     The FOXE1 locus is a major genetic determinant for
            radiation-related thyroid carcinoma in Chernobyl
  JOURNAL   Hum Mol Genet 19 (12), 2516-2523 (2010)
   PUBMED   20350937
REFERENCE   6  (bases 1 to 1577)
  AUTHORS   Moreno,L.M., Mansilla,M.A., Bullard,S.A., Cooper,M.E., Busch,T.D.,
            Machida,J., Johnson,M.K., Brauer,D., Krahn,K., Daack-Hirsch,S.,
            L'heureux,J., Valencia-Ramirez,C., Rivera,D., Lopez,A.M.,
            Moreno,M.A., Hing,A., Lammer,E.J., Jones,M., Christensen,K.,
            Lie,R.T., Jugessur,A., Wilcox,A.J., Chines,P., Pugh,E., Doheny,K.,
            Arcos-Burgos,M., Marazita,M.L., Murray,J.C. and Lidral,A.C.
  TITLE     FOXE1 association with both isolated cleft lip with or without
            cleft palate, and isolated cleft palate
  JOURNAL   Hum Mol Genet 18 (24), 4879-4896 (2009)
   PUBMED   19779022
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   7  (bases 1 to 1577)
  AUTHORS   Liu,L.X., Margottin,F., Le Gall,S., Schwartz,O., Selig,L.,
            Benarous,R. and Benichou,S.
  TITLE     Binding of HIV-1 Nef to a novel thioesterase enzyme correlates with
            Nef-mediated CD4 down-regulation
  JOURNAL   J Biol Chem 272 (21), 13779-13785 (1997)
   PUBMED   9153233
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL499604.9.
            
            On Jul 19, 2019 this sequence version replaced NM_016481.4.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK000213.1, BC002863.2 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2467146 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000375119.8/ ENSP00000364260.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-83                AL499604.9         140702-140784       c
            84-258              AL499604.9         134448-134622       c
            259-416             AL499604.9         131685-131842       c
            417-1073            AL499604.9         128244-128900       c
            1074-1577           AL499604.9         122773-123276       c
FEATURES             Location/Qualifiers
     source          1..1577
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="9"
                     /map="9q22.33"
     gene            1..1577
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="tRNA methyltransferase O"
                     /db_xref="GeneID:51531"
                     /db_xref="HGNC:HGNC:30967"
     exon            1..83
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /inference="alignment:Splign:2.1.0"
     CDS             8..1333
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="isoform 1 is encoded by transcript variant 1; Nef
                     associated protein 1; Nef (lentivirus myristoylated
                     factor) associated protein 1; thioesterase NAP1;
                     nef-associated protein 1; tRNA
                     (adenine(37)-N6)-methyltransferase"
                     /codon_start=1
                     /product="tRNA (adenine(37)-N6)-methyltransferase isoform
                     1"
                     /protein_id="NP_057565.3"
                     /db_xref="CCDS:CCDS6730.1"
                     /db_xref="GeneID:51531"
                     /db_xref="HGNC:HGNC:30967"
                     /translation="MRGLEESGPRPTATPCGCVKPALETGNLLTEPVGYLESCFSAKN
                     GTPRQPSICSYSRACLRIRKRIFNNPEHSLMGLEQFSHVWILFVFHKNGHLSCKAKVQ
                     PPRLNGAKTGVFSTRSPHRPNAIGLTLAKLEKVEGGAIYLSGIDMIHGTPVLDIKPYI
                     AEYDSPQNVMEPLADFNLQNNQHTPNTVSQSDSKTDSCDQRQLSGCDEPQPHHSTKRK
                     PKCPEDRTSEENYLTHSDTARIQQAFPMHREIAVDFGLESRRDQSSSVAEEQIGPYCP
                     EKSFSEKGTDKKLERVEGAAVLQGSRAETQPMAPHCPAGRADGAPRSVVPAWVTEAPV
                     ATLEVRFTPHAEMDLGQLSSQDVGQASFKYFQSAEEAKRAIEAVLSADPRSVYRRKLC
                     QDRLFYFTVDIAHVTCWFGDGFAEVLRIKPASEPVHMTGPVGSLVSLGS"
     exon            84..258
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /inference="alignment:Splign:2.1.0"
     exon            259..416
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /inference="alignment:Splign:2.1.0"
     exon            417..1073
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /inference="alignment:Splign:2.1.0"
     exon            1074..1577
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1504..1509
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="hexamer: AACAAA"
     regulatory      1514..1519
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="hexamer: TATAAA"
     regulatory      1519..1524
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="hexamer: AATACA"
     polyA_site      1520
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="major polyA site"
     polyA_site      1533
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
     polyA_site      1538
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
     regulatory      1558..1563
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="hexamer: ATTAAA"
     polyA_site      1577
                     /gene="TRMO"
                     /gene_synonym="C9orf156; HSPC219; NAP1"
                     /note="major polyA site"
ORIGIN      
        1 agtagccatg cgcggcttgg aggagtcggg gcctcggcct acagcgaccc cgtgcggctg
       61 cgttaagccg gctctggaga cagggaatct tttaactgag ccagtcggct acttggaatc
      121 ttgtttctcg gccaagaatg gtactccaag acagccatcc atttgtagct attctcgagc
      181 ctgtttgagg attagaaaga ggatctttaa taatcctgaa cattccttga tgggcctaga
      241 acagttttct catgtttgga ttttgtttgt ttttcacaaa aatggtcatt tgagctgtaa
      301 ggcaaaagtg cagcctccta ggctgaatgg tgcaaagact ggagtttttt ccacaaggag
      361 ccctcatcgt cccaatgcaa taggactgac cctggccaag ctggaaaagg tagaaggtgg
      421 agctatatac ctttctggaa ttgacatgat acatggcaca cccgtactag acatcaagcc
      481 ctacatagct gagtatgact caccgcaaaa tgtgatggag cctttagcag actttaattt
      541 acagaataac caacatacac caaacactgt gtcccagtct gacagcaaga ctgacagctg
      601 tgaccagcga cagctctcag ggtgtgatga gccacaaccc caccatagca ctaagaggaa
      661 acctaaatgt cctgaagaca gaacttcaga agaaaactac ctgacacaca gtgacacagc
      721 cagaattcag caagcatttc ctatgcacag ggagatagca gtggattttg gtttggaatc
      781 aagacgtgat cagagttcca gcgtggcaga agaacaaatt ggcccatatt gcccagagaa
      841 gagcttttca gagaaaggta cagacaagaa gctagaaaga gtggaaggag cagcagtctt
      901 gcaaggaagc agggcagaga cacagcccat ggcccctcac tgccctgctg gaagggctga
      961 tggagctccc cgcagcgtgg ttcctgcctg ggtgacagag gctcctgtgg ccactttaga
     1021 agtgcggttt actcctcatg ccgagatgga ccttgggcag ctcagttcac aagatgttgg
     1081 tcaggcgtca tttaaatatt ttcagtcagc agaggaagca aagcgtgcca ttgaggctgt
     1141 gctgtcagcg gatcctcggt ctgtgtaccg ccggaagctt tgccaggacc gccttttcta
     1201 ctttactgta gacatagcgc atgtcacttg ctggtttggt gatggctttg cagaggtgct
     1261 gaggatcaag ccggcttctg agcctgttca tatgactggc cctgtggggt ccttggtgtc
     1321 tctagggtct taaggagcct ccctcatgtc tttaaggtag catcattgat ctttggatgt
     1381 ggcttttgga ttttctgaac aagctaatgt tgtgtcgaga agcaacactt tgtgatctca
     1441 tggctttgat tgatttgggc tgttcaaaat gtttatttga aaaacgtata cattaataaa
     1501 cttaacaaag agatataaaa tacagagaaa tcaccaaatg ctttttgatc tgttgatatt
     1561 aaagaatcaa aaggtga
//
