LOCUS       NM_001412814            4210 bp    mRNA    linear   ROD 14-MAY-2024
DEFINITION  Mus musculus cell adhesion molecule 3 (Cadm3), transcript variant
            1, mRNA.
ACCESSION   NM_001412814 XM_006497060
VERSION     NM_001412814.1
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 4210)
  AUTHORS   Kawashima,R., Matsushita,K., Mandai,K., Sugita,Y., Maruo,T.,
            Mizutani,K., Midoh,Y., Oguchi,A., Murakawa,Y., Kuniyoshi,K.,
            Sato,R., Furukawa,T., Nishida,K. and Takai,Y.
  TITLE     Necl-1/CADM3 regulates cone synapse formation in the mouse retina
  JOURNAL   iScience 27 (4), 109577 (2024)
   PUBMED   38623325
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4210)
  AUTHORS   Song,B.G., Kwon,S.Y., Kyung,J.W., Roh,E.J., Choi,H., Lim,C.S.,
            An,S.B., Sohn,S. and Han,I.
  TITLE     Synaptic Cell Adhesion Molecule 3 (SynCAM3) Deletion Promotes
            Recovery from Spinal Cord Injury by Limiting Glial Scar Formation
  JOURNAL   Int J Mol Sci 23 (11), 6218 (2022)
   PUBMED   35682897
  REMARK    GeneRIF: Synaptic Cell Adhesion Molecule 3 (SynCAM3) Deletion
            Promotes Recovery from Spinal Cord Injury by Limiting Glial Scar
            Formation.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4210)
  AUTHORS   Song,W., Li,Q., Wang,T., Li,Y., Fan,T., Zhang,J., Wang,Q., Pan,J.,
            Dong,Q., Sun,Z.S. and Wang,Y.
  TITLE     Putative complement control protein CSMD3 dysfunction impairs
            synaptogenesis and induces neurodevelopmental disorders
  JOURNAL   Brain Behav Immun 102, 237-250 (2022)
   PUBMED   35245678
REFERENCE   4  (bases 1 to 4210)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4210)
  AUTHORS   Sukhanov,N., Vainshtein,A., Eshed-Eisenbach,Y. and Peles,E.
  TITLE     Differential Contribution of Cadm1-Cadm3 Cell Adhesion Molecules to
            Peripheral Myelinated Axons
  JOURNAL   J Neurosci 41 (7), 1393-1400 (2021)
   PUBMED   33397712
  REMARK    GeneRIF: Differential Contribution of Cadm1-Cadm3 Cell Adhesion
            Molecules to Peripheral Myelinated Axons.
REFERENCE   6  (bases 1 to 4210)
  AUTHORS   Zhou,Y., Du,G., Hu,X., Yu,S., Liu,Y., Xu,Y., Huang,X., Liu,J.,
            Yin,B., Fan,M., Peng,X., Qiang,B. and Yuan,J.
  TITLE     Nectin-like molecule 1 is a protein 4.1N associated protein and
            recruits protein 4.1N from cytoplasm to the plasma membrane
  JOURNAL   Biochim Biophys Acta 1669 (2), 142-154 (2005)
   PUBMED   15893517
REFERENCE   7  (bases 1 to 4210)
  AUTHORS   Kakunaga,S., Ikeda,W., Itoh,S., Deguchi-Tawarada,M., Ohtsuka,T.,
            Mizoguchi,A. and Takai,Y.
  TITLE     Nectin-like molecule-1/TSLL1/SynCAM3: a neural tissue-specific
            immunoglobulin-like cell-cell adhesion molecule localizing at
            non-junctional contact sites of presynaptic nerve terminals, axons
            and glia cell processes
  JOURNAL   J Cell Sci 118 (Pt 6), 1267-1277 (2005)
   PUBMED   15741237
  REMARK    GeneRIF: Necl-1 is a neural-tissue-specific Ca2+-independent
            immunoglobulin-like cell-cell adhesion molecule which potentially
            has membrane-associated guanylate kinase subfamily member-binding
            activity and localizes at the non-junctional cell-cell contact
            sites
REFERENCE   8  (bases 1 to 4210)
  AUTHORS   Thuret,S., Bhatt,L., O'Leary,D.D. and Simon,H.H.
  TITLE     Identification and developmental analysis of genes expressed by
            dopaminergic neurons of the substantia nigra pars compacta
  JOURNAL   Mol Cell Neurosci 25 (3), 394-405 (2004)
   PUBMED   15033168
REFERENCE   9  (bases 1 to 4210)
  AUTHORS   Fukami,T., Satoh,H., Williams,Y.N., Masuda,M., Fukuhara,H.,
            Maruyama,T., Yageta,M., Kuramochi,M., Takamoto,S. and Murakami,Y.
  TITLE     Isolation of the mouse Tsll1 and Tsll2 genes, orthologues of the
            human TSLC1-like genes 1 and 2 (TSLL1 and TSLL2)
  JOURNAL   Gene 323, 11-18 (2003)
   PUBMED   14659875
REFERENCE   10 (bases 1 to 4210)
  AUTHORS   Shingai,T., Ikeda,W., Kakunaga,S., Morimoto,K., Takekuni,K.,
            Itoh,S., Satoh,K., Takeuchi,M., Imai,T., Monden,M. and Takai,Y.
  TITLE     Implications of nectin-like
            molecule-2/IGSF4/RA175/SgIGSF/TSLC1/SynCAM1 in cell-cell adhesion
            and transmembrane protein localization in epithelial cells
  JOURNAL   J Biol Chem 278 (37), 35421-35427 (2003)
   PUBMED   12826663
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC084073.22.
            
            On Oct 19, 2022 this sequence version replaced XM_006497060.4.
            
            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 :: SRR7974084.25565.1,
                                           SRR7652917.4021.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164138, SAMN01164139
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-236               AC084073.22        59095-59330         c
            237-338             AC084073.22        40705-40806         c
            339-479             AC084073.22        38105-38245         c
            480-632             AC084073.22        37428-37580         c
            633-770             AC084073.22        36603-36740         c
            771-941             AC084073.22        36003-36173         c
            942-1032            AC084073.22        33352-33442         c
            1033-1202           AC084073.22        32737-32906         c
            1203-1328           AC084073.22        29703-29828         c
            1329-4210           AC084073.22        25941-28822         c
FEATURES             Location/Qualifiers
     source          1..4210
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="1"
                     /map="1 80.33 cM"
     gene            1..4210
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="cell adhesion molecule 3"
                     /db_xref="GeneID:94332"
                     /db_xref="MGI:MGI:2137858"
     exon            1..236
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     CDS             155..1447
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; immunoglobulin superfamily, member 4B;
                     nectin-lke 1; TSLC1-like protein 1; nectin-like protein 1;
                     synaptic cell adhesion molecule 3"
                     /codon_start=1
                     /product="cell adhesion molecule 3 isoform 1 precursor"
                     /protein_id="NP_001399743.1"
                     /db_xref="GeneID:94332"
                     /db_xref="MGI:MGI:2137858"
                     /translation="MGAPSALPLLLLLACSWAPGGANLSQDGYWQEQDLELGTPAPLE
                     EALSSTVWSNPDLLASQDSQPWTSDETVVAGGTVVLKCQVKDHEDSSLQWSNPAQQTL
                     YFGEKRALRDNRIQLVSSTPHELSISISNVALADEGEYTCSIFTMPVRTAKSLVTVLG
                     IPQKPIITGYKSSLREKETATLNCQSSGSKPAAQLTWRKGDQELHGDQTRIQEDPNGK
                     TFTVSSSVSFQVTREDDGANIVCSVNHESLKGADRSTSQRIEVLYTPTAMIRPEPAHP
                     REGQKLLLHCEGRGNPVPQQYVWVKEGSEPPLKMTQESALIFPFLNKSDSGTYGCTAT
                     SNMGSYTAYFTLNVNDPSPVPSSSSTYHAIIGGIVAFIVFLLLILLIFLGHYLIRHKG
                     TYLTHEAKGSDDAPDADTAIINAEGGQSGGDDKKEYFI"
     exon            237..338
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            339..479
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            480..632
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            633..770
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            771..941
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            942..1032
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            1033..1202
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            1203..1328
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     exon            1329..4210
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2452..2457
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="hexamer: AACAAA"
     regulatory      2461..2466
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="hexamer: ACTAAA"
     polyA_site      2470
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="major polyA site"
     polyA_site      2502
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="major polyA site"
     regulatory      2630..2635
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="hexamer: AACAAG"
     polyA_site      2642
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
     regulatory      3593..3598
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="hexamer: AATATA"
     polyA_site      3619
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
     regulatory      4187..4192
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
                     /note="hexamer: ATTAAA"
     polyA_site      4210
                     /gene="Cadm3"
                     /gene_synonym="BIgR; Igsf4b; Necl-1; Necl1; SynCAM3;
                     Tsll1"
ORIGIN      
        1 ggctccctcc cggtacccgc ctcggccccg ggcttggaag ccgctccggg gttgcccctt
       61 tggacagcga cgccggctac ccagaacccc cggccccagt ccccggagat ctaggctcgc
      121 cagcgcccag ccagggaggt ggccaggaag cgcgatgggg gccccttccg ccctgcccct
      181 gctcctgctc ctcgcctgct cctgggcgcc cggcggggcc aatctttccc aggacggcta
      241 ctggcaggag caggatttgg agctgggaac tccggctcca ctggaggagg ccctcagctc
      301 cacagtctgg agcaaccctg acctgctggc cagtcaagat agccagccct ggacatctga
      361 tgaaacagtt gtggctggtg gcacagtggt tctcaagtgt caagtaaaag accatgaaga
      421 ctcatctctg cagtggtcta accctgctca gcagacccta tacttcgggg agaagagagc
      481 ccttcgagat aatcggattc agctggttag ctctactccc catgagctca gcatcagcat
      541 cagcaatgtg gcgctggccg atgaggggga gtacacgtgc tccatcttca ctatgcctgt
      601 gcgaaccgcc aagtcccttg tcactgtgct cggaatccca cagaaaccca taatcactgg
      661 ttataagtca tcattgcggg aaaaggagac agccactcta aattgtcagt cttctgggag
      721 caaacctgca gcccagctca cctggaggaa aggtgaccaa gaactccacg gggaccaaac
      781 acgaatccag gaagatccca acgggaaaac cttcactgtg agcagctcag tgtcattcca
      841 ggttacccgg gaggatgatg gagcaaacat cgtgtgctct gtgaaccatg aatctctgaa
      901 gggagccgac agatccactt ctcagcgcat tgaagtgtta tacacaccaa cagccatgat
      961 taggccagaa cctgctcatc ctcgagaagg ccagaagctg ttgttacatt gtgaggggcg
     1021 tggcaatcca gtcccccagc agtacgtgtg ggtaaaggaa ggcagtgagc cacccctcaa
     1081 gatgacccaa gagagtgctc tcatcttccc ctttttgaat aagagtgaca gtggcactta
     1141 tggctgtaca gccacaagca acatgggcag ctatacagcc tacttcaccc tcaatgtcaa
     1201 cgaccccagt ccagtgccct cgtcctccag tacctaccac gccatcattg gagggattgt
     1261 ggctttcatt gtcttcctgc tgctcattct gctcattttc cttggacact atttgatccg
     1321 gcacaaagga acctacctga cacacgaagc gaagggttcc gacgatgctc cagatgcgga
     1381 tacggccatc atcaacgcag aaggcgggca gtcaggcggg gatgacaaga aggaatattt
     1441 catctagggg cacccacaca actcctgagc ccctaggggc cccatgggga ctgctgggct
     1501 gtcaccaacc tggacttgta cagagcgacc ccagggccgc ccctcccgct tgctccccca
     1561 gcccacccag ccccctgtac agaatgtctg ctttgggtgc ggttttgtac tcggtttgga
     1621 atggggggga ggagggcggg tgggaggggt gggtcgccct cagccccttt tgtggcttct
     1681 ctgcgtttgg gttattatta tttttgtaac aatcccaaat caaatccgtc tccaaggctg
     1741 gagaggcagg ggccatgggg gtaaggagag caacgaatct gtaatgttca gaggaggaag
     1801 ttggagggat tagaaatgaa tgaggagcaa gggctggttt gtgggtgggg cttaacacag
     1861 ccctccttcc atttttacag cagatgtggc cccaaaggaa cctgggaatg gaagcagggg
     1921 ctagtggtgg ctcttcctct gctggccctg cactacagac agggagatgg gtgtcacact
     1981 gccacctctc ttccattaca taaggaagaa atgagaagga tagtgttcag agatgtgatc
     2041 tgaagatagc atgcagccac acaagaaccc agggcttcac cgtgttcctc ccagtgagag
     2101 tagatttcca gagagggtgg tggaatcagc cctgttcacc cattgctccc acacagtgaa
     2161 tgaagctagg ctcttttaac agaatctgcc cttgggggac agtagggctc agtcttctct
     2221 cccagctcca gcagctgtgg aagaggcagc tgtggacctg aacaacgtct gctgccccca
     2281 cctcggaggg gcccctcact cttacccgag cccctggact gttgcacggc aaccgctcct
     2341 cttatggcat tgctcagcaa ctactcctcc accctgtgtc accccgtgcc ctctccggtt
     2401 ccctgtgcca gccctcggtc cctcctccct cagcagccag gcagacatga caacaaaatt
     2461 actaaaagga gcttcgctgc agtgagctgt ttcctgccca aaccgaggga ataatgtgaa
     2521 ctctgtacat gtgtgtatgt gtgtgtgtgt acgtgtatgt gtatgtgtac gtgtttgtgt
     2581 aagtgtgtgt aagtatgcat ggatgtgtgt acgtgtgtgt gtgtgtgtga acaagaagaa
     2641 aagggattga gaagaaggac caggggtctc aggtggggga acagggcatg ggacacatga
     2701 ggcgggtctt tgggagtgga cactttgtag tcagggcttg tacttcatct agagggctgc
     2761 tccattctag ccatttccag gccactctcg atgcctacgt gagagagagg agtcccagga
     2821 agtggtttat cgggctgtgc attttgaccc tctctgaaat accatgcatt cgccaccttt
     2881 ccctggacct cccatctctg agccatgggc tagggccacc gtctctgcta tgcacccctc
     2941 tccctggcac tgaccctgga tccccatctt ctgtacccag tgactagacg actgggtact
     3001 catatcagct tttggttgac tgtcttcctt cttatggcca agctggttgc tgtggagagg
     3061 agttgctcac tctctccatc ctggctggcc ctgtccctta gacccaggat gctcttgggc
     3121 atcatactcc ccctcctccg gcatgtcctc cctgctctga caacaggtgt gcaaaatggg
     3181 gcagctgcaa tccagcaggc ctgcccactc cttcagttca ggtaatacct tcatgaatct
     3241 tccagcccct ggttaggaat ctgggcaccc caggtagccc ctcacttagc caggacttct
     3301 cctcttatag cagcaaggga gccctgggtc ccagggatgg gctcctgtct gggctccttg
     3361 tctcccagca cccgcttttg gggaaacaac ttttcctctt cgagctgaac cactctgtcc
     3421 atattacaca gaagccatat ttgtaccagg ggggcggggg gagagggggc tgttgtgctg
     3481 tgtgtgtctg tctgtgggtg ggggtgggag tgggggaagg gagcagggag gggaccgtgt
     3541 atctttataa tctttctaac tctcctgtgc taatctcaga gggaccaccc tcaatatatc
     3601 tggattatcc atgtggtcag gctgcctcct ttctgctcct ctcactgctg gctgggctgc
     3661 atgtaaataa gggctgtcct catgtcccgg gcacctggca ctcaaaggga actgcatcct
     3721 tgccatgctg ctctgtggag catctgtatg tggaatcgag ggacagagag tgtctgagtc
     3781 ctttgctttc cagagaatat ttgcatttaa agcatgccac ccgactgcta ccccgttacc
     3841 ctctgtccag caatgctggc cgcctctgtg atggaggtaa agacctgagc aacgctatgc
     3901 gggaaggaaa gcttcaccca tttttttttc tttttttgcc aaactctctt tttagctccc
     3961 tcctgataca cctgaaattt gacctgggta ctcatccgag agggttaatg ggaacccaca
     4021 tattgaacat gtatcctgta tttctcctgg ccagagaaat aacaattcta cctcccatca
     4081 gaaactttac ctattgccga gatgccaaac caatgaagca ttctcacagt ctgtatgttt
     4141 cacaacagaa tatgaataga gattacccaa taggctatag tctcacatta aagtatgcta
     4201 tcccatggtc
//
