LOCUS       NM_001177887            1907 bp    mRNA    linear   ROD 29-JUL-2024
DEFINITION  Mus musculus immunoglobulin superfamily, member 5 (Igsf5),
            transcript variant 2, mRNA.
ACCESSION   NM_001177887
VERSION     NM_001177887.1
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 1907)
  AUTHORS   Lun,M.P., Johnson,M.B., Broadbelt,K.G., Watanabe,M., Kang,Y.J.,
            Chau,K.F., Springel,M.W., Malesz,A., Sousa,A.M., Pletikos,M.,
            Adelita,T., Calicchio,M.L., Zhang,Y., Holtzman,M.J., Lidov,H.G.,
            Sestan,N., Steen,H., Monuki,E.S. and Lehtinen,M.K.
  TITLE     Spatially heterogeneous choroid plexus transcriptomes encode
            positional identity and contribute to regional CSF production
  JOURNAL   J Neurosci 35 (12), 4903-4916 (2015)
   PUBMED   25810521
  REMARK    Erratum:[J Neurosci. 2015 Jun 3;35(22):8686. Adelita, Tai
            [corrected to Adelita, Tais]]
REFERENCE   2  (bases 1 to 1907)
  AUTHORS   Thompson,C.L., Ng,L., Menon,V., Martinez,S., Lee,C.K.,
            Glattfelder,K., Sunkin,S.M., Henry,A., Lau,C., Dang,C.,
            Garcia-Lopez,R., Martinez-Ferre,A., Pombero,A., Rubenstein,J.L.R.,
            Wakeman,W.B., Hohmann,J., Dee,N., Sodt,A.J., Young,R., Smith,K.,
            Nguyen,T.N., Kidney,J., Kuan,L., Jeromin,A., Kaykas,A., Miller,J.,
            Page,D., Orta,G., Bernard,A., Riley,Z., Smith,S., Wohnoutka,P.,
            Hawrylycz,M.J., Puelles,L. and Jones,A.R.
  TITLE     A high-resolution spatiotemporal atlas of gene expression of the
            developing mouse brain
  JOURNAL   Neuron 83 (2), 309-323 (2014)
   PUBMED   24952961
REFERENCE   3  (bases 1 to 1907)
  AUTHORS   Nagamatsu,G., Ohmura,M., Mizukami,T., Hamaguchi,I., Hirabayashi,S.,
            Yoshida,S., Hata,Y., Suda,T. and Ohbo,K.
  TITLE     A CTX family cell adhesion molecule, JAM4, is expressed in stem
            cell and progenitor cell populations of both male germ cell and
            hematopoietic cell lineages
  JOURNAL   Mol Cell Biol 26 (22), 8498-8506 (2006)
   PUBMED   16982697
  REMARK    GeneRIF: These results suggest that JAM4 is expressed in stem cells
            and progenitor cells but that other cell adhesion molecules may
            substitute for JAM4 function in JAM4-deficient mice both in male
            germ cell and hematopoietic lineages.
REFERENCE   4  (bases 1 to 1907)
  AUTHORS   Kansaku,A., Hirabayashi,S., Mori,H., Fujiwara,N., Kawata,A.,
            Ikeda,M., Rokukawa,C., Kurihara,H. and Hata,Y.
  TITLE     Ligand-of-Numb protein X is an endocytic scaffold for junctional
            adhesion molecule 4
  JOURNAL   Oncogene 25 (37), 5071-5084 (2006)
   PUBMED   16832352
  REMARK    GeneRIF: LNX1 provides an endocytic scaffold for JAM4 that is
            implicated in the reorganization of cell junctions.
REFERENCE   5  (bases 1 to 1907)
  AUTHORS   Willnow,T., Antignac,C., Brandli,A., Christensen,E., Cox,R.,
            Davidson,D., Davies,J., Devuyst,O., Eichele,G., Hastie,N.,
            Verroust,P., Schedl,A. and Meij,I.
  TITLE     The European renal genome project: an integrated approach towards
            understanding the genetics of kidney development and disease
  JOURNAL   Organogenesis 2 (2), 42-47 (2005)
   PUBMED   19521566
REFERENCE   6  (bases 1 to 1907)
  AUTHORS   Nishimura,M., Yokoi,N., Miki,T., Horikawa,Y., Yoshioka,H.,
            Takeda,J., Ohara,O. and Seino,S.
  TITLE     Construction of a multi-functional cDNA library specific for mouse
            pancreatic islets and its application to microarray
  JOURNAL   DNA Res 11 (5), 315-323 (2004)
   PUBMED   15747579
REFERENCE   7  (bases 1 to 1907)
  AUTHORS   Hirabayashi,S., Tajima,M., Yao,I., Nishimura,W., Mori,H. and
            Hata,Y.
  TITLE     JAM4, a junctional cell adhesion molecule interacting with a tight
            junction protein, MAGI-1
  JOURNAL   Mol Cell Biol 23 (12), 4267-4282 (2003)
   PUBMED   12773569
  REMARK    GeneRIF: JAM4 together with MAGI-1 provides an adhesion machinery
            at tight junctions, which may regulate the permeability of kidney
            glomerulus and small intestinal epithelial cells
REFERENCE   8  (bases 1 to 1907)
  AUTHORS   Gitton,Y., Dahmane,N., Baik,S., Ruiz i Altaba,A., Neidhardt,L.,
            Scholze,M., Herrmann,B.G., Kahlem,P., Benkahla,A., Schrinner,S.,
            Yildirimman,R., Herwig,R., Lehrach,H. and Yaspo,M.L.
  CONSRTM   HSA21 expression map initiative
  TITLE     A gene expression map of human chromosome 21 orthologues in the
            mouse
  JOURNAL   Nature 420 (6915), 586-590 (2002)
   PUBMED   12466855
REFERENCE   9  (bases 1 to 1907)
  AUTHORS   Reymond,A., Marigo,V., Yaylaoglu,M.B., Leoni,A., Ucla,C.,
            Scamuffa,N., Caccioppoli,C., Dermitzakis,E.T., Lyle,R., Banfi,S.,
            Eichele,G., Antonarakis,S.E. and Ballabio,A.
  TITLE     Human chromosome 21 gene expression atlas in the mouse
  JOURNAL   Nature 420 (6915), 582-586 (2002)
   PUBMED   12466854
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BX511978.1, AK086973.1, AK078934.1 and BP772151.1.
            
            Transcript Variant: This variant (2) has an alternate 3' exon, as
            compared to variant 1. The resulting isoform (2) is 2 aa shorter
            and has a different C-terminus, as compared to isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF537215.1, SRR7345562.1354185.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849377, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-532               BX511978.1         25-556
            533-647             AK086973.1         530-644
            648-1125            AK086973.1         646-1123
            1126-1888           AK078934.1         790-1552
            1889-1907           BP772151.1         27-45               c
FEATURES             Location/Qualifiers
     source          1..1907
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 56.93 cM"
     gene            1..1907
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /note="immunoglobulin superfamily, member 5"
                     /db_xref="GeneID:72058"
                     /db_xref="MGI:MGI:1919308"
     exon            1..88
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     exon            89..166
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     CDS             109..1221
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /note="isoform 2 precursor is encoded by transcript
                     variant 2; junction adhesion molecule 4; cell adhesion
                     molecule JCAM; JAM-4; junctional adhesion molecule 4"
                     /codon_start=1
                     /product="immunoglobulin superfamily member 5 isoform 2
                     precursor"
                     /protein_id="NP_001171358.1"
                     /db_xref="CCDS:CCDS49924.1"
                     /db_xref="GeneID:72058"
                     /db_xref="MGI:MGI:1919308"
                     /translation="MEGSWRDVLAVLVILAQLTASGSSYQIIEGPQNVTVLKDSEAHF
                     NCTVTHGWKLLMWTLNQMVVLSLTTQGPIITNNRFTYASYNSTDSFISELIIHDVQPS
                     DSGSVQCSLQNSHGFGSAFLSVQVMGTLNIPSNNLIVTEGEPCNVTCYAVGWTSLPDI
                     SWELEVPVSHSSYNSFLEPGNFMRVLSVLDLTPLGNGTLTCVAELKDLQASKSLTVNL
                     TVVQPPPDSIGEEGPALPTWAIILLAVAFSLLLILIIVLIIIFCCCCASRREKEESTY
                     QNEIRKSANMRTNKADPETKLKSGKENYGYSSDEAKAAQTASLPPKSAEVSLPEKRSS
                     SLPYQELNKHQPGPATHPRVSFDIASPQKVRNVTLV"
     exon            167..484
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     exon            485..784
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     exon            785..925
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     exon            926..950
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     exon            951..1051
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     exon            1052..1125
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     exon            1126..1891
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1878..1883
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /note="hexamer: AATGAA"
     polyA_site      1891
                     /gene="Igsf5"
                     /gene_synonym="2010003D20Rik; Jam4; JCAM"
                     /note="major polyA site"
ORIGIN      
        1 agtcagaagt gttcccgtgt ttctatagag agcagccaga agccgggaag ccctgtgtga
       61 acgagataca gagatttacc tgcctgaggt aaggaagatc atgctgagat ggagggcagc
      121 tggagagatg tcctggctgt gctggtcatc ctggctcagc tgacagcttc cggatccagt
      181 tatcagatca tagaaggtcc tcagaatgta acagtcctaa aggactcaga ggctcacttc
      241 aactgcaccg tgactcacgg ctggaagctt ctcatgtgga ctcttaacca aatggtggtg
      301 ctgagtctca ccacccaagg acccatcatc accaacaacc gcttcaccta tgccagttac
      361 aacagcactg acagcttcat ctcggagttg atcatccatg atgtgcagcc cagtgactcg
      421 ggatccgtgc aatgcagcct gcagaacagc catgggtttg gatctgcctt cctctcagtg
      481 caagtcatgg ggaccctgaa cattcctagc aacaacctta tagtcactga gggtgaaccc
      541 tgtaatgtga cttgctatgc cgtgggctgg acctcactcc cggatatttc ctgggagctt
      601 gaggttcccg taagccattc gagttacaat tcctttctgg agccgggcaa ctttatgagg
      661 gtcttgagtg tcctggacct cacaccactg ggcaacggga ccttgacttg tgtggcagag
      721 ctgaaggact tgcaggccag caagtcctta actgtcaacc tgactgtggt tcagcctcca
      781 cctgacagta ttggagagga aggcccagca ctgccgacct gggccatcat cctgctggca
      841 gtggcctttt ccttgctctt gatcctgatc attgttttga ttataatatt ctgttgctgt
      901 tgtgcctcca ggagagaaaa ggaagaatct acttatcaaa atgaaataag gaaatctgca
      961 aacatgagga caaacaaagc agatccggag acaaagttaa aaagtggaaa ggaaaactac
     1021 gggtacagtt cggatgaggc aaaggctgca cagactgcat ctctccctcc taaatctgct
     1081 gaagtcagcc ttccagaaaa acgcagcagt agccttcctt atcaggaact caataaacat
     1141 cagcccggtc cagcaactca tccacgggtt tcctttgaca tcgccagtcc tcagaaggtc
     1201 agaaatgtga ctttagtgta ataaagactt ctcatgactg tacttggtgc acatccacca
     1261 agtcaatgcc attctcttcc gtatcctgag actgggtctc agttttgcca aggagtctgc
     1321 atcggagtca ccggagctga tggttaatag tgacaggagg aatcagtttc cctgtattcc
     1381 aagaagtatt tggttttgag atgtgtcatg attttggtga attcctcaag gtggccgagt
     1441 aaaacccaag tgtctgtcat ggtggcattc ctcatgactt gacactcctg ccgatccaac
     1501 gaagggcaga tatagattct gcaacgacct tcaaaatgct tctgttgtct gagatcatgg
     1561 taatatggtc tttatgtgta cttcgcagct agggatgtta ctgaacatta ttacagaaac
     1621 aagagcctaa cagctagact caactgcatc ttgtaagtaa ctggcagctg gagctcaggg
     1681 atgcagtaag aggagaggca gtgtcagtgc acaggtccca atgctctccg caagacagtc
     1741 atccccatgt gcgccctgat cctcgtcacc acagttgtag gtgaattagg cgtggattct
     1801 gcctgatgag ggacaaagct cacattctgc cagcatcatg aaagaactgg agagagacat
     1861 atactattta ataaacaaat gaaaagccaa aaaaaaaaaa aaaaaaa
//
