LOCUS       NM_178839               2602 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens leucine rich repeat transmembrane neuronal 1 (LRRTM1),
            mRNA.
ACCESSION   NM_178839
VERSION     NM_178839.5
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 2602)
  AUTHORS   Beste,C., Arning,L., Gerding,W.M., Epplen,J.T., Mertins,A.,
            Roder,M.C., Bless,J.J., Hugdahl,K., Westerhausen,R., Gunturkun,O.
            and Ocklenburg,S.
  TITLE     Cognitive Control Processes and Functional Cerebral Asymmetries:
            Association with Variation in the Handedness-Associated Gene LRRTM1
  JOURNAL   Mol Neurobiol 55 (3), 2268-2274 (2018)
   PUBMED   28321770
  REMARK    GeneRIF: Functional cerebral asymmetries in the language domain are
            associated with the rs6733871 LRRTM1 polymorphism during cognitive
            control and top-down attention mechanisms.
REFERENCE   2  (bases 1 to 2602)
  AUTHORS   Loh,K.H., Stawski,P.S., Draycott,A.S., Udeshi,N.D., Lehrman,E.K.,
            Wilton,D.K., Svinkina,T., Deerinck,T.J., Ellisman,M.H., Stevens,B.,
            Carr,S.A. and Ting,A.Y.
  TITLE     Proteomic Analysis of Unbounded Cellular Compartments: Synaptic
            Clefts
  JOURNAL   Cell 166 (5), 1295-1307 (2016)
   PUBMED   27565350
REFERENCE   3  (bases 1 to 2602)
  AUTHORS   Brucato,N., DeLisi,L.E., Fisher,S.E. and Francks,C.
  TITLE     Hypomethylation of the paternally inherited LRRTM1 promoter linked
            to schizophrenia
  JOURNAL   Am J Med Genet B Neuropsychiatr Genet 165B (7), 555-563 (2014)
   PUBMED   25111784
  REMARK    GeneRIF: Hypomethylation of the paternally inherited LRRTM1
            promoter is linked to schizophrenia.
REFERENCE   4  (bases 1 to 2602)
  AUTHORS   Leach,E.L., Prefontaine,G., Hurd,P.L. and Crespi,B.J.
  TITLE     The imprinted gene LRRTM1 mediates schizotypy and handedness in a
            nonclinical population
  JOURNAL   J Hum Genet 59 (6), 332-336 (2014)
   PUBMED   24785688
  REMARK    GeneRIF: Continuity between schizophrenia and schizotypy exists
            with regard to the psychological effects of allelic variation in
            LRRTM1, and epigenetic variation in the imprinted gene mediates the
            development and expression of human handedness.
REFERENCE   5  (bases 1 to 2602)
  AUTHORS   Kask,M., Pruunsild,P. and Timmusk,T.
  TITLE     Bidirectional transcription from human LRRTM2/CTNNA1 and
            LRRTM1/CTNNA2 gene loci leads to expression of N-terminally
            truncated CTNNA1 and CTNNA2 isoforms
  JOURNAL   Biochem Biophys Res Commun 411 (1), 56-61 (2011)
   PUBMED   21708131
  REMARK    GeneRIF: CTNNA1 and CTNNA2 contain alternative 5' exons linked to
            bidirectional promoters that are shared with the antisense oriented
            LRRTM2 and LRRTM1 genes, respectively.
REFERENCE   6  (bases 1 to 2602)
  AUTHORS   Crow,T.J., Close,J.P., Dagnall,A.M. and Priddle,T.H.
  TITLE     Where and what is the right shift factor or cerebral dominance
            gene? A critique of Francks et al. (2007)
  JOURNAL   Laterality 14 (1), 3-10 (2009)
   PUBMED   19125366
  REMARK    GeneRIF: While we agree (and indeed first proposed) that the
            variation underlying psychosis is intrinsically related to the
            cerebral torque, which we take to be the anatomical basis of
            language, we are unconvinced by the data for LRRTM1.
REFERENCE   7  (bases 1 to 2602)
  AUTHORS   McManus,C., Nicholls,M. and Vallortigara,G.
  TITLE     Editorial commentary: is LRRTM1 the gene for handedness?
  JOURNAL   Laterality 14 (1), 1-2 (2009)
   PUBMED   19125365
  REMARK    GeneRIF: Whether or not LRRTM1 on chromosome 2p12 is indeed the
            genetic basis of handedness is still unclear, although the
            controversy of the claim seems indisputable.
REFERENCE   8  (bases 1 to 2602)
  AUTHORS   Francks,C., Maegawa,S., Lauren,J., Abrahams,B.S., Velayos-Baeza,A.,
            Medland,S.E., Colella,S., Groszer,M., McAuley,E.Z., Caffrey,T.M.,
            Timmusk,T., Pruunsild,P., Koppel,I., Lind,P.A., Matsumoto-Itaba,N.,
            Nicod,J., Xiong,L., Joober,R., Enard,W., Krinsky,B., Nanba,E.,
            Richardson,A.J., Riley,B.P., Martin,N.G., Strittmatter,S.M.,
            Moller,H.J., Rujescu,D., St Clair,D., Muglia,P., Roos,J.L.,
            Fisher,S.E., Wade-Martins,R., Rouleau,G.A., Stein,J.F.,
            Karayiorgou,M., Geschwind,D.H., Ragoussis,J., Kendler,K.S.,
            Airaksinen,M.S., Oshimura,M., DeLisi,L.E. and Monaco,A.P.
  TITLE     LRRTM1 on chromosome 2p12 is a maternally suppressed gene that is
            associated paternally with handedness and schizophrenia
  JOURNAL   Mol Psychiatry 12 (12), 1129-1139 (2007)
   PUBMED   17667961
  REMARK    GeneRIF: LRRTM1 on chromosome 2p12 is a maternally suppressed gene
            that is associated paternally with handedness and schizophrenia.
REFERENCE   9  (bases 1 to 2602)
  AUTHORS   Clark,H.F., Gurney,A.L., Abaya,E., Baker,K., Baldwin,D., Brush,J.,
            Chen,J., Chow,B., Chui,C., Crowley,C., Currell,B., Deuel,B.,
            Dowd,P., Eaton,D., Foster,J., Grimaldi,C., Gu,Q., Hass,P.E.,
            Heldens,S., Huang,A., Kim,H.S., Klimowski,L., Jin,Y., Johnson,S.,
            Lee,J., Lewis,L., Liao,D., Mark,M., Robbie,E., Sanchez,C.,
            Schoenfeld,J., Seshagiri,S., Simmons,L., Singh,J., Smith,V.,
            Stinson,J., Vagts,A., Vandlen,R., Watanabe,C., Wieand,D., Woods,K.,
            Xie,M.H., Yansura,D., Yi,S., Yu,G., Yuan,J., Zhang,M., Zhang,Z.,
            Goddard,A., Wood,W.I., Godowski,P. and Gray,A.
  TITLE     The secreted protein discovery initiative (SPDI), a large-scale
            effort to identify novel human secreted and transmembrane proteins:
            a bioinformatics assessment
  JOURNAL   Genome Res 13 (10), 2265-2270 (2003)
   PUBMED   12975309
  REMARK    Erratum:[Genome Res. 2003 Dec;13(12):2759]
REFERENCE   10 (bases 1 to 2602)
  AUTHORS   Lauren,J., Airaksinen,M.S., Saarma,M. and Timmusk,T.
  TITLE     A novel gene family encoding leucine-rich repeat transmembrane
            proteins differentially expressed in the nervous system
  JOURNAL   Genomics 81 (4), 411-421 (2003)
   PUBMED   12676565
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC016670.7, BI756350.1, AY182024.1 and AA977181.1.
            
            On Nov 22, 2018 this sequence version replaced NM_178839.4.
            
            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 :: AK225779.1, SRR1660805.88319.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMEA1968832
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000295057.4/ ENSP00000295057.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-390               AC016670.7         89497-89886         c
            391-800             BI756350.1         1-410
            801-2167            AY182024.1         141-1507
            2168-2602           AA977181.1         6-440               c
FEATURES             Location/Qualifiers
     source          1..2602
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2p12"
     gene            1..2602
                     /gene="LRRTM1"
                     /note="leucine rich repeat transmembrane neuronal 1"
                     /db_xref="GeneID:347730"
                     /db_xref="HGNC:HGNC:19408"
                     /db_xref="MIM:610867"
     exon            1..601
                     /gene="LRRTM1"
                     /inference="alignment:Splign:2.1.0"
     exon            602..2602
                     /gene="LRRTM1"
                     /inference="alignment:Splign:2.1.0"
     CDS             661..2229
                     /gene="LRRTM1"
                     /note="leucine-rich repeat transmembrane neuronal 1
                     protein; leucine-rich repeat transmembrane neuronal
                     protein 1"
                     /codon_start=1
                     /product="leucine-rich repeat transmembrane neuronal
                     protein 1 precursor"
                     /protein_id="NP_849161.2"
                     /db_xref="CCDS:CCDS1966.1"
                     /db_xref="GeneID:347730"
                     /db_xref="HGNC:HGNC:19408"
                     /db_xref="MIM:610867"
                     /translation="MDFLLLGLCLYWLLRRPSGVVLCLLGACFQMLPAAPSGCPQLCR
                     CEGRLLYCEALNLTEAPHNLSGLLGLSLRYNSLSELRAGQFTGLMQLTWLYLDHNHIC
                     SVQGDAFQKLRRVKELTLSSNQITQLPNTTFRPMPNLRSVDLSYNKLQALAPDLFHGL
                     RKLTTLHMRANAIQFVPVRIFQDCRSLKFLDIGYNQLKSLARNSFAGLFKLTELHLEH
                     NDLVKVNFAHFPRLISLHSLCLRRNKVAIVVSSLDWVWNLEKMDLSGNEIEYMEPHVF
                     ETVPHLQSLQLDSNRLTYIEPRILNSWKSLTSITLAGNLWDCGRNVCALASWLNNFQG
                     RYDGNLQCASPEYAQGEDVLDAVYAFHLCEDGAEPTSGHLLSAVTNRSDLGPPASSAT
                     TLADGGEGQHDGTFEPATVALPGGEHAENAVQIHKVVTGTMALIFSFLIVVLVLYVSW
                     KCFPASLRQLRQCFVTQRRKQKQKQTMHQMAAMSAQEYYVDYKPNHIEGALVIINEYG
                     SCTCHQQPARECEV"
     regulatory      2582..2587
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LRRTM1"
                     /note="hexamer: AATAAA"
     polyA_site      2602
                     /gene="LRRTM1"
                     /note="major polyA site"
ORIGIN      
        1 gacactcagt gagcagtagg tgcctgtgca agctcgcgcc gcacactgcc tggtggaggg
       61 aaggagcccg ggcgccgctc gccgctcccc gcgccgccgt ccgcacctcc ccaccgcccg
      121 ccgcccgccg cccgccgccc gcaaagcatg agtgagcccg ctctctgcag ctgcccgggg
      181 cgcgaatggc aggctgtttc cgcggagtaa aaggtggcgc cggtcagtgg tcgtttccaa
      241 tgacggacat taaccagact gtcagatcct ggggagtcgc gagccccgag tttggagttt
      301 tttcccccca caacgtcaca gtccgaactg cagagggaaa ggaaggcggc aggaaggcga
      361 agctcgggct ccggcacgta gttgggaaac ttgcgggtcc tagaagtcgc ctccccgcct
      421 tgccggccgc ccttgcagcc ccgagccgag cagcaaagtg agacattgtg cgcctgccag
      481 atccgccggc cgcggaccgg ggctgcctcg gaaacacaga ggggtcttct ctcgccctgc
      541 atataattag cctgcacaca aagggagcag ctgaatggag gttgtcactc tctggaaaag
      601 gatttctgac cgagcgcttc caatggacat tctccagtct ctctggaaag attctcgcta
      661 atggatttcc tgctgctcgg tctctgtcta tactggctgc tgaggaggcc ctcgggggtg
      721 gtcttgtgtc tgctgggggc ctgctttcag atgctgcccg ccgcccccag cgggtgcccg
      781 cagctgtgcc ggtgcgaggg gcggctgctg tactgcgagg cgctcaacct caccgaggcg
      841 ccccacaacc tgtccggcct gctgggcttg tccctgcgct acaacagcct ctcggagctg
      901 cgcgccggcc agttcacggg gttaatgcag ctcacgtggc tctatctgga tcacaatcac
      961 atctgctccg tgcaggggga cgcctttcag aaactgcgcc gagttaagga actcacgctg
     1021 agttccaacc agatcaccca actgcccaac accaccttcc ggcccatgcc caacctgcgc
     1081 agcgtggacc tctcgtacaa caagctgcag gcgctcgcgc ccgacctctt ccacgggctg
     1141 cggaagctca ccacgctgca tatgcgggcc aacgccatcc agtttgtgcc cgtgcgcatc
     1201 ttccaggact gccgcagcct caagtttctc gacatcggat acaatcagct caagagtctg
     1261 gcgcgcaact ctttcgccgg cttgtttaag ctcaccgagc tgcacctcga gcacaacgac
     1321 ttggtcaagg tgaacttcgc ccacttcccg cgcctcatct ccctgcactc gctctgcctg
     1381 cggaggaaca aggtggccat tgtggtcagc tcgctggact gggtttggaa cctggagaaa
     1441 atggacttgt cgggcaacga gatcgagtac atggagcccc atgtgttcga gaccgtgccg
     1501 cacctgcagt ccctgcagct ggactccaac cgcctcacct acatcgagcc ccggatcctc
     1561 aactcttgga agtccctgac aagcatcacc ctggccggga acctgtggga ttgcgggcgc
     1621 aacgtgtgtg ccctagcctc gtggctcaac aacttccagg ggcgctacga tggcaacttg
     1681 cagtgcgcca gcccggagta cgcacagggc gaggacgtcc tggacgccgt gtacgccttc
     1741 cacctgtgcg aggatggggc cgagcccacc agcggccacc tgctctcggc cgtcaccaac
     1801 cgcagtgatc tggggccccc tgccagctcg gccaccacgc tcgcggacgg cggggagggg
     1861 cagcacgacg gcacattcga gcctgccacc gtggctcttc caggcggcga gcacgccgag
     1921 aacgccgtgc agatccacaa ggtggtcacg ggcaccatgg ccctcatctt ctccttcctc
     1981 atcgtggtcc tggtgctcta cgtgtcctgg aagtgtttcc cagccagcct caggcagctc
     2041 agacagtgct ttgtcacgca gcgcaggaag caaaagcaga aacagaccat gcatcagatg
     2101 gctgccatgt ctgcccagga atactacgtt gattacaaac cgaaccacat tgagggagcc
     2161 ctggtgatca tcaacgagta tggctcgtgt acctgccacc agcagcccgc gagggaatgc
     2221 gaggtgtgat tgtcccagtg gctctcaacc catgcgctac caaatacgcc tgggcagccg
     2281 ggacgggccg gcgggcacca ggctggggtc tccttgtctg tgctctgata tgctccttga
     2341 ctgaaacttt aaggggatct ctcccagaga cttgacattt tagctttatt gtgtcttaaa
     2401 aacaaaagcg aattaaaaca caacaaaaaa ccccacccca caaccttcag gacagtctat
     2461 cttaaatttc atatgagaac tccttcctcc ctttgaagat ctgtccatat tcaggaatct
     2521 gagagtgtaa aaaaggtacc aatcattgat tttttttttt tttgtaaact aaaatgttta
     2581 aaataaaata gcatttacag tt
//
