LOCUS       NM_028880               2761 bp    mRNA    linear   ROD 17-JUL-2024
DEFINITION  Mus musculus leucine rich repeat transmembrane neuronal 1 (Lrrtm1),
            transcript variant 1, mRNA.
ACCESSION   NM_028880
VERSION     NM_028880.4
KEYWORDS    RefSeq; RefSeq Select.
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 2761)
  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   2  (bases 1 to 2761)
  AUTHORS   Matern,M.S., Durruthy-Durruthy,R., Birol,O., Darmanis,S.,
            Scheibinger,M., Groves,A.K. and Heller,S.
  TITLE     Transcriptional dynamics of delaminating neuroblasts in the mouse
            otic vesicle
  JOURNAL   Cell Rep 42 (6), 112545 (2023)
   PUBMED   37227818
REFERENCE   3  (bases 1 to 2761)
  AUTHORS   de Arce,K.P., Ribic,A., Chowdhury,D., Watters,K., Thompson,G.J.,
            Sanganahalli,B.G., Lippard,E.T.C., Rohlmann,A., Strittmatter,S.M.,
            Missler,M., Hyder,F. and Biederer,T.
  TITLE     Concerted roles of LRRTM1 and SynCAM 1 in organizing prefrontal
            cortex synapses and cognitive functions
  JOURNAL   Nat Commun 14 (1), 459 (2023)
   PUBMED   36709330
  REMARK    GeneRIF: Concerted roles of LRRTM1 and SynCAM 1 in organizing
            prefrontal cortex synapses and cognitive functions.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2761)
  AUTHORS   Abdelazim,H., Payne,L.B., Nolan,K., Paralkar,K., Bradley,V.,
            Kanodia,R., Gude,R., Ward,R., Monavarfeshani,A., Fox,M.A. and
            Chappell,J.C.
  TITLE     Pericyte heterogeneity identified by 3D ultrastructural analysis of
            the microvessel wall
  JOURNAL   Front Physiol 13, 1016382 (2022)
   PUBMED   36589416
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2761)
  AUTHORS   Dhume,S.H., Connor,S.A., Mills,F., Tari,P.K., Au-Yeung,S.H.M.,
            Karimi,B., Oku,S., Roppongi,R.T., Kawabe,H., Bamji,S.X., Wang,Y.T.,
            Brose,N., Jackson,M.F., Craig,A.M. and Siddiqui,T.J.
  TITLE     Distinct but overlapping roles of LRRTM1 and LRRTM2 in developing
            and mature hippocampal circuits
  JOURNAL   Elife 11, e64742 (2022)
   PUBMED   35662394
  REMARK    GeneRIF: Distinct but overlapping roles of LRRTM1 and LRRTM2 in
            developing and mature hippocampal circuits.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2761)
  AUTHORS   Schilling,K. and Oberdick,J.
  TITLE     The treasury of the commons: making use of public gene expression
            resources to better characterize the molecular diversity of
            inhibitory interneurons in the cerebellar cortex
  JOURNAL   Cerebellum 8 (4), 477-489 (2009)
   PUBMED   19554387
REFERENCE   7  (bases 1 to 2761)
  AUTHORS   Linhoff,M.W., Lauren,J., Cassidy,R.M., Dobie,F.A., Takahashi,H.,
            Nygaard,H.B., Airaksinen,M.S., Strittmatter,S.M. and Craig,A.M.
  TITLE     An unbiased expression screen for synaptogenic proteins identifies
            the LRRTM protein family as synaptic organizers
  JOURNAL   Neuron 61 (5), 734-749 (2009)
   PUBMED   19285470
REFERENCE   8  (bases 1 to 2761)
  AUTHORS   Vadasz,C., Saito,M., Gyetvai,B.M., Oros,M., Szakall,I.,
            Kovacs,K.M., Prasad,V.V., Morahan,G. and Toth,R.
  TITLE     Mapping of QTLs for oral alcohol self-administration in B6.C and
            B6.I quasi-congenic RQI strains
  JOURNAL   Neurochem Res 32 (7), 1099-1112 (2007)
   PUBMED   17273929
REFERENCE   9  (bases 1 to 2761)
  AUTHORS   Haines,B.P. and Rigby,P.W.
  TITLE     Developmentally regulated expression of the LRRTM gene family
            during mid-gestation mouse embryogenesis
  JOURNAL   Gene Expr Patterns 7 (1-2), 23-29 (2007)
   PUBMED   16860615
REFERENCE   10 (bases 1 to 2761)
  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
            AC121356.10.
            
            On Apr 6, 2018 this sequence version replaced NM_028880.3.
            
            Transcript Variant: This variant (1) and variant 2 both encode the
            same protein.
            
            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.
            
            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 :: BC027803.1, SRR6116558.76905.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849380, SAMN00849381
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            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
            1-746               AC121356.10        54342-55087
            747-2761            AC121356.10        55368-57382
FEATURES             Location/Qualifiers
     source          1..2761
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 33.89 cM"
     gene            1..2761
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="leucine rich repeat transmembrane neuronal 1"
                     /db_xref="GeneID:74342"
                     /db_xref="MGI:MGI:2389173"
     exon            1..746
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            747..2761
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             806..2374
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="leucine-rich repeat transmembrane neuronal protein
                     1"
                     /codon_start=1
                     /product="leucine-rich repeat transmembrane neuronal
                     protein 1 precursor"
                     /protein_id="NP_083156.2"
                     /db_xref="CCDS:CCDS39522.1"
                     /db_xref="GeneID:74342"
                     /db_xref="MGI:MGI:2389173"
                     /translation="MDFLLLGLCLHWLLRRPSGVVLCLLGACFQMLPAAPSGCPGQCR
                     CEGRLLYCEALNLTEAPHNLSGLLGLSLRYNSLSELRAGQFTGLMQLTWLYLDHNHIC
                     SVQGDAFQKLRRVKELTLSSNQITELANTTFRPMPNLRSVDLSYNKLQALAPDLFHGL
                     RKLTTLHMRANAIQFVPVRIFQDCRSLKFLDIGYNQLKSLARNSFAGLFKLTELHLEH
                     NDLIKVNFAHFPRLISLHSLCLRRNKVAIVVSSLDWVWNLEKMDLSGNEIEYMEPHVF
                     ETVPYLQTLQLDSNRLTYIEPRILNSWKSLTSITLAGNLWDCGRNVCALASWLSNFQG
                     RYDANLQCASPEYAQGEDVLDAVYAFHLCEDGAEPTSGHLLSVAVTNRSDLTPPESSA
                     TTLVDGGEGHDGTFEPITVALPGGEHAENAVQIHKVVTGTMALIFSFLIVVLVLYVSW
                     KCFPASLRQLRQCFVTQRRKQKQKQTMHQMAAMSAQEYYVDYKPNHIEGALVIINEYG
                     SCTCHQQPARECEV"
     regulatory      2542..2547
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="hexamer: AACAAA"
     polyA_site      2560
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="major polyA site"
     regulatory      2563..2568
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="hexamer: AATAAA"
     polyA_site      2588
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="major polyA site"
     regulatory      2719..2724
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="hexamer: ACTAAA"
     regulatory      2733..2738
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
                     /note="hexamer: AATAAA"
     polyA_site      2739
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
     polyA_site      2759
                     /gene="Lrrtm1"
                     /gene_synonym="4632401D06Rik"
ORIGIN      
        1 gcccgcaaat agatacaaga aaaaaaaaag ctgagagtgt ttttcatttc atcaaagaac
       61 atatattact ttagcggctc ggtttaaaaa aaaaatgttg gttttcttcc cacccctttt
      121 caatctgccg gtgttggagg tgctcggaga agacgcacaa tcgcgagcag cttacgacac
      181 tcagtgagca gtcggtgccg gtgcaggctc gcgcacactc ctcggaggag ggaaggagcc
      241 gggcgctgct ctgcgctccg caaggcatga gccggccagg tttccgcagc tgcccgggac
      301 acgaatggca ggcgttctcc aacctggact ccaaggtggc ttcgattcgc gttggtcatt
      361 gccgatgaca ttctccagac tgtcaaatcc tggggagtct cgagccccga gtttggagtt
      421 gatcttttac ctcaaccccc caaccacgtc acagtctcaa ctgcagagga aaaaaaaggg
      481 ggaccgaggc aggaaggcga gaagcacggg ctcccggcac gtagttggga aacttgcggg
      541 tcctagaagt cgcctccccg cctcgccgac cgcccctgca gccccggagc gcagcagcaa
      601 agtgagacat tgtgcgtctg ccagatcctc gggccgcgga gcagggctgc ctcgggaaac
      661 acagaggggt cttctctcgc cctgcatata attagcctac acacaaaggg agcagctgaa
      721 tggaggttgt cactcgctgg aaaaggattt ctgacccagc gcttccaatg gacattctcc
      781 agtctctctg gaaagattct cgctaatgga tttcctgcta ctcggcctct gtctacactg
      841 gctgctgagg aggccctcgg gggtggtctt gtgtctgctg ggggcctgct ttcagatgct
      901 gcccgccgcc cccagcggat gcccggggca gtgtcggtgc gaggggcggc tgctgtactg
      961 cgaggcgctc aacctaaccg aggcgcccca taacctgtcc ggcctgctgg gcttgtcttt
     1021 gcgctacaac agcctctcgg agctgcgcgc cggccagttc acagggttaa tgcagctcac
     1081 gtggctgtat ttggatcaca atcacatctg ctcggtgcag ggggacgcct ttcagaaact
     1141 gcgccgagtt aaggaactca cgctgagttc caaccagatc actgaactgg ccaacaccac
     1201 cttccggccc atgcccaacc tgcgcagcgt ggacctgtcc tataacaagc tgcaggcgct
     1261 agctccggat ctcttccacg ggctgcggaa gctcaccacc ctgcacatgc gggccaatgc
     1321 catccaattc gtgccggtgc gcatctttca ggactgccgc agcctcaagt ttctcgacat
     1381 tggatacaat cagctcaaga gtctggcgcg caactctttc gccggcttgt tcaagctcac
     1441 agagctacac ctggagcata atgacttgat caaggtgaac ttcgcccatt tcccgcgcct
     1501 catctccctg cactcgctct gcctgaggcg gaataaggtt gccattgtgg tcagctctct
     1561 cgactgggtt tggaatttgg agaaaatgga cttgtctggg aacgagatcg aatacatgga
     1621 gccccatgtg ttcgagaccg ttccctacct gcagaccctg cagctggact ccaaccgcct
     1681 cacctacatt gagccccgta ttctcaactc ctggaagtcc cttacgagca tcactctggc
     1741 cgggaacctg tgggactgcg ggcgcaacgt gtgtgctcta gcttcctggc tcagcaactt
     1801 ccagggacgt tacgatgcta acttgcagtg cgccagccca gagtacgcac agggcgagga
     1861 cgtcttggat gcagtgtatg ctttccacct gtgtgaggat ggggccgagc ccaccagcgg
     1921 ccacctcctg tcggtggccg tcactaaccg cagtgaccta acgcccccag agagctcagc
     1981 cacgactctg gtggacggtg gggaggggca cgatggcacg tttgagccca tcactgtggc
     2041 tcttccaggc ggcgagcacg cagagaacgc tgtgcaaatc cacaaagtgg tcactggcac
     2101 catggccctc atcttctcct tcctcatcgt ggtcctcgta ctctacgtat cctggaagtg
     2161 tttcccagcc agcctcaggc agctcagaca gtgctttgtc acgcagcgca ggaagcagaa
     2221 gcagaaacag accatgcatc agatggctgc tatgtctgcc caggaatact atgttgatta
     2281 caaacctaac cacatcgagg gggccctggt tatcatcaac gagtacggtt cgtgtacctg
     2341 tcaccagcag cctgcgaggg aatgcgaggt gtgattgtcc cagaggctcc caacccatgc
     2401 gctaccaaat acgcctgggc agccgggcgg gccagcgggc accaggactg gtctcctctg
     2461 cgctctgatt tgttgactga aactgtaagg ggatctctcc cagagacttg acattttagc
     2521 tttatgtgtc ttaaaaaaac aaacaaacaa acaaaatccc gaaataaaac acaacaaaaa
     2581 aaaccccacc ccataatctt caggacagtc tgtcttaaat ttcatatgag aacttcttcc
     2641 tccctttgaa gatctgtcca tattcaggaa tctgagagtg ttaaaaaaag gtaccaatca
     2701 ttgatttttc ttttgtaaac taaaacgttt aaaataaaat agcatttaca gtttctacag
     2761 a
//
