LOCUS       NM_013660               4411 bp    mRNA    linear   ROD 12-OCT-2024
DEFINITION  Mus musculus sema domain, immunoglobulin domain (Ig), transmembrane
            domain (TM) and short cytoplasmic domain, (semaphorin) 4D (Sema4d),
            transcript variant 2, mRNA.
ACCESSION   NM_013660
VERSION     NM_013660.5
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 4411)
  AUTHORS   Zhang,Y., Jiang,X., Wu,D., Huang,H., Jia,G. and Zhao,G.
  TITLE     Sema4D deficiency enhances glucose tolerance through GLUT2
            retention in hepatocytes
  JOURNAL   J Transl Med 22 (1), 864 (2024)
   PUBMED   39334386
  REMARK    GeneRIF: Sema4D deficiency enhances glucose tolerance through GLUT2
            retention in hepatocytes.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4411)
  AUTHORS   Bessa,P., Newman,A.G., Yan,K., Schaub,T., Dannenberg,R., Lajko,D.,
            Eilenberger,J., Brunet,T., Textoris-Taube,K., Kemmler,E., Deng,P.,
            Banerjee,P., Ravindran,E., Preissner,R., Rosario,M. and
            Tarabykin,V.
  TITLE     Semaphorin heterodimerization in cis regulates membrane targeting
            and neocortical wiring
  JOURNAL   Nat Commun 15 (1), 7059 (2024)
   PUBMED   39152101
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4411)
  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   4  (bases 1 to 4411)
  AUTHORS   Wu,B., Xu,C., Xu,C., Qiu,L., Gao,J.X., Li,M., Xiong,Y., Xia,H.,
            Xia,Z. and Liu,X.
  TITLE     Inhibition of Sema4D attenuates pressure overload-induced
            pathological myocardial hypertrophy via the MAPK/NF-kappaB/NLRP3
            pathways
  JOURNAL   Biochim Biophys Acta Mol Basis Dis 1870 (3), 166944 (2024)
   PUBMED   37952827
  REMARK    GeneRIF: Inhibition of Sema4D attenuates pressure overload-induced
            pathological myocardial hypertrophy via the MAPK/NF-kappaB/NLRP3
            pathways.
REFERENCE   5  (bases 1 to 4411)
  AUTHORS   Mraz,V., Funch,A.B., Jee,M.H., Gadsboll,A.O., Weber,J.F., Yeung,K.,
            Lohmann,R.K.D., Hawkes,A., Odum,N., Woetmann,A., McKay,D.,
            Witherden,D., Geisler,C. and Bonefeld,C.M.
  TITLE     CD100 boosts the inflammatory response in the challenge phase of
            allergic contact dermatitis in mice
  JOURNAL   Contact Dermatitis 89 (6), 442-452 (2023)
   PUBMED   37700557
  REMARK    GeneRIF: CD100 boosts the inflammatory response in the challenge
            phase of allergic contact dermatitis in mice.
REFERENCE   6  (bases 1 to 4411)
  AUTHORS   Watanabe,C., Kumanogoh,A., Shi,W., Suzuki,K., Yamada,S., Okabe,M.,
            Yoshida,K. and Kikutani,H.
  TITLE     Enhanced immune responses in transgenic mice expressing a truncated
            form of the lymphocyte semaphorin CD100
  JOURNAL   J Immunol 167 (8), 4321-4328 (2001)
   PUBMED   11591755
REFERENCE   7  (bases 1 to 4411)
  AUTHORS   Shi,W., Kumanogoh,A., Watanabe,C., Uchida,J., Wang,X., Yasui,T.,
            Yukawa,K., Ikawa,M., Okabe,M., Parnes,J.R., Yoshida,K. and
            Kikutani,H.
  TITLE     The class IV semaphorin CD100 plays nonredundant roles in the
            immune system: defective B and T cell activation in CD100-deficient
            mice
  JOURNAL   Immunity 13 (5), 633-642 (2000)
   PUBMED   11114376
REFERENCE   8  (bases 1 to 4411)
  AUTHORS   Furuyama,T., Inagaki,S., Kosugi,A., Noda,S., Saitoh,S., Ogata,M.,
            Iwahashi,Y., Miyazaki,N., Hamaoka,T. and Tohyama,M.
  TITLE     Identification of a novel transmembrane semaphorin expressed on
            lymphocytes
  JOURNAL   J Biol Chem 271 (52), 33376-33381 (1996)
   PUBMED   8969198
REFERENCE   9  (bases 1 to 4411)
  AUTHORS   Puschel,A.W., Adams,R.H. and Betz,H.
  TITLE     The sensory innervation of the mouse spinal cord may be patterned
            by differential expression of and differential responsiveness to
            semaphorins
  JOURNAL   Mol Cell Neurosci 7 (5), 419-431 (1996)
   PUBMED   8812066
REFERENCE   10 (bases 1 to 4411)
  AUTHORS   Oquendo,P., Alberta,J., Wen,D.Z., Graycar,J.L., Derynck,R. and
            Stiles,C.D.
  TITLE     The platelet-derived growth factor-inducible KC gene encodes a
            secretory protein related to platelet alpha-granule proteins
  JOURNAL   J Biol Chem 264 (7), 4133-4137 (1989)
   PUBMED   2917992
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC126247.3 and AC126547.4.
            
            On Feb 7, 2020 this sequence version replaced NM_013660.4.
            
            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.
            
            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 :: BC049780.1, SRR13422598.1770651.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-182               AC126247.3         49615-49796         c
            183-251             AC126547.4         172304-172372       c
            252-570             AC126547.4         134276-134594       c
            571-716             AC126547.4         132595-132740       c
            717-779             AC126547.4         131370-131432       c
            780-878             AC126547.4         129558-129656       c
            879-972             AC126547.4         123846-123939       c
            973-1086            AC126547.4         122744-122857       c
            1087-1238           AC126547.4         121731-121882       c
            1239-1414           AC126547.4         120501-120676       c
            1415-1571           AC126547.4         120252-120408       c
            1572-1794           AC126547.4         118964-119186       c
            1795-1910           AC126547.4         117927-118042       c
            1911-2083           AC126547.4         114125-114297       c
            2084-2127           AC126547.4         114005-114048       c
            2128-4411           AC126547.4         110300-112583       c
FEATURES             Location/Qualifiers
     source          1..4411
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 26.16 cM"
     gene            1..4411
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /note="sema domain, immunoglobulin domain (Ig),
                     transmembrane domain (TM) and short cytoplasmic domain,
                     (semaphorin) 4D"
                     /db_xref="GeneID:20354"
                     /db_xref="MGI:MGI:109244"
     exon            1..182
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            183..251
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            252..570
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     CDS             465..3050
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 2; semaphorin-4D; sema J; semaphorin-J;
                     semaphorin-C-like 2; M-sema G; semaphorin H"
                     /codon_start=1
                     /product="semaphorin-4D isoform 1 precursor"
                     /protein_id="NP_038688.2"
                     /db_xref="CCDS:CCDS26514.1"
                     /db_xref="GeneID:20354"
                     /db_xref="MGI:MGI:109244"
                     /translation="MRMCAPVRGLFLALVVVLRTAVAFAPVPRLTWEHGEVGLVQFHK
                     PGIFNYSALLMSEDKDTLYVGAREAVFAVNALNISEKQHEVYWKVSEDKKSKCAEKGK
                     SKQTECLNYIRVLQPLSSTSLYVCGTNAFQPTCDHLNLTSFKFLGKSEDGKGRCPFDP
                     AHSYTSVMVGGELYSGTSYNFLGSEPIISRNSSHSPLRTEYAIPWLNEPSFVFADVIQ
                     KSPDGPEGEDDKVYFFFTEVSVEYEFVFKLMIPRVARVCKGDQGGLRTLQKKWTSFLK
                     ARLICSKPDSGLVFNILQDVFVLRAPGLKEPVFYAVFTPQLNNVGLSAVCAYTLATVE
                     AVFSRGKYMQSATVEQSHTKWVRYNGPVPTPRPGACIDSEARAANYTSSLNLPDKTLQ
                     FVKDHPLMDDSVTPIDNRPKLIKKDVNYTQIVVDRTQALDGTFYDVMFISTDRGALHK
                     AVILTKEVHVIEETQLFRDSEPVLTLLLSSKKGRKFVYAGSNSGVVQAPLAFCEKHGS
                     CEDCVLARDPYCAWSPAIKACVTLHQEEASSRGWIQDMSGDTSSCLDKSKESFNQHFF
                     KHGGTAELKCFQKSNLARVVWKFQNGELKAASPKYGFVGRKHLLIFNLSDGDSGVYQC
                     LSEERVRNKTVSQLLAKHVLEVKMVPRTPPSPTSEDAQTEGSKITSKMPVASTQGSSP
                     PTPALWATSPRAATLPPKSSSGTSCEPKMVINTVPQLHSEKTVYLKSSDNRLLMSLLL
                     FIFVLFLCLFSYNCYKGYLPGQCLKFRSALLLGKKTPKSDFSDLEQSVKETLVEPGSF
                     SQQNGDHPKPALDTGYETEQDTITSKVPTDREDSQRIDELSARDKPFDVKCELKFADS
                     DADGD"
     exon            571..716
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            717..779
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            780..878
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            879..972
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            973..1086
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1087..1238
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1239..1414
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1415..1571
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1572..1794
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1795..1910
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1911..2083
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            2084..2127
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            2128..4411
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4389..4394
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /note="hexamer: AATAAA"
     polyA_site      4411
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /note="major polyA site"
ORIGIN      
        1 acgccggcct ccgctccctc tcgcgccgca gcatctccgc gcgtctcccg gcctccccga
       61 ctcaagctcc tggcgccgtt cgcctctgtc gtcgctgcca ccaacgccgc cgccattctt
      121 ggcgcggagc tggcctggcc agcccccgcc gagagcctcc gcgggtcgga cgcgcgctcc
      181 agaccctggt aacaccacag gaacacagcc aagtcctgaa taccgacatg tctgacagtg
      241 ctgatcccta ggtcagacgg gaacaccggc agccttggca tgacgtcgtg aaggtggcca
      301 ttgctaacct gacatgtggg gactcaggaa ccccacccct tatgggctcc agtctgtgct
      361 gctggcccca gctctggggc tctaagaggt ccttgctgct accccacagc agcctgctgc
      421 catccatgtg tgcccgttgc tgaaggcctc ggtggcccct gcccatgagg atgtgtgccc
      481 ccgttagggg gctgttcttg gccctggtgg tagtgttgag aaccgcggtg gcatttgcac
      541 ctgtgcctcg gctcacctgg gaacatggag aggtaggtct ggtgcagttt cacaagccag
      601 gcatctttaa ctactcggcc ttgctgatga gtgaggacaa agacactctg tatgtaggcg
      661 cccgggaagc agtctttgca gtgaatgcgc tgaacatctc tgagaagcaa catgaggtat
      721 attggaaggt ctctgaagac aaaaaatcca agtgtgcaga gaaggggaaa tcaaagcaga
      781 cggaatgcct aaactacatt cgagtactac agccactaag cagcacttcc ctctatgtgt
      841 gtgggaccaa tgcgttccag cccacctgtg accacctgaa cttgacatcc ttcaagtttc
      901 tggggaaaag tgaagatggc aaaggaagat gccccttcga ccccgcccac agctacacat
      961 cagtcatggt tgggggcgag ctctactctg ggacgtccta taatttcttg ggcagtgaac
     1021 ccatcatctc tcgaaactct tcccacagtc ccttgaggac ggagtatgcc atcccgtggc
     1081 tgaacgagcc tagcttcgtc tttgctgacg tgatccagaa aagcccagat ggtccggagg
     1141 gtgaagatga caaggtctac ttctttttta cggaggtatc cgtggagtac gaattcgtct
     1201 tcaagttgat gatcccgcga gttgccaggg tgtgcaaggg cgaccagggc ggcctgcgga
     1261 ctttgcaaaa aaagtggacc tccttcctaa aggccaggct gatctgctcc aagccagaca
     1321 gtggcctggt cttcaacata cttcaggatg tgtttgtgct gagggccccg ggcctcaagg
     1381 agcctgtgtt ctatgcggtc ttcaccccac agctgaacaa tgtgggtctg tcagcggtgt
     1441 gcgcctacac actggccacg gtggaggcag tcttctcccg tggaaagtac atgcagagtg
     1501 ccacagtgga gcagtctcac accaagtggg tgcgctacaa tggcccagtg cccactcccc
     1561 gacctggagc gtgtatcgac agtgaggccc gggcagccaa ctacaccagc tccttgaatc
     1621 tcccagacaa aacactgcag tttgtaaaag accacccttt gatggatgac tcagtgaccc
     1681 cgatagacaa cagacccaag ctgatcaaaa aagatgtaaa ctacacccag atagtggtag
     1741 acaggaccca ggccctggat gggactttct acgacgtcat gttcatcagc acagaccggg
     1801 gagctctgca taaagcagtc atcctcacaa aagaggtgca tgtcatcgag gagacccaac
     1861 tcttccggga ctctgaaccg gtcctaactc tgctgctatc gtcaaagaag gggaggaagt
     1921 ttgtctatgc aggctccaac tctggagtgg tccaagcgcc cctggcattc tgcgaaaagc
     1981 acggtagctg tgaagactgt gtgttagcac gggaccccta ctgtgcctgg agcccagcca
     2041 tcaaggcctg tgttaccctg caccaggaag aggcctccag caggggctgg attcaggaca
     2101 tgagcggtga cacatcctca tgcctggata agagtaaaga aagtttcaac cagcattttt
     2161 tcaagcacgg cggcacagcg gaactcaaat gtttccaaaa gtccaaccta gcccgggtgg
     2221 tatggaagtt ccagaatggc gagttgaagg ccgcaagtcc caagtacggc tttgtgggca
     2281 ggaagcacct gctcatcttc aacctgtcgg acggagacag cggcgtgtac cagtgcctgt
     2341 cagaggaaag ggtgaggaat aaaacggtct cccagctgct ggccaagcac gttctggaag
     2401 tgaagatggt acctcggacc cccccctcac ctacctcaga ggatgctcag acagaaggta
     2461 gtaagatcac atccaaaatg ccggttgcat ctacccaggg gtcctctccc cctaccccgg
     2521 ctctgtgggc aacctccccc agagccgcca ccctacctcc caagtcctcc tccggcacat
     2581 cctgtgaacc aaagatggtc atcaacacgg tcccccagct ccactcagag aagacggtgt
     2641 atctcaagtc cagtgacaac cgcctgctca tgtctctcct cctcttcatc tttgtcctct
     2701 tcctctgcct cttttcctac aactgctaca agggctacct gcccggacag tgcttaaaat
     2761 tccgctcagc cctgctgctt ggaaagaaaa cacccaagtc agacttctct gacctggagc
     2821 agagtgtgaa ggagacactg gtcgagcctg ggagcttctc ccagcagaac ggcgaccacc
     2881 ccaagccagc cctggatacg ggctatgaaa cggagcagga caccatcacc agcaaagtcc
     2941 ccacggatcg tgaggactcg caacggatcg atgaactctc tgcccgggac aaaccgtttg
     3001 atgtcaagtg tgaactgaag tttgcagatt cggatgctga cggggactga ggccagcgtg
     3061 tcccagccca tgcccctctg tcttcgtgga gagtgttgtg ttgagcccat tcagtagccg
     3121 agtcttgtca ctctgtgcca gcctcagtcc tgtgtccctt tttctcttgg gttgagcctg
     3181 tggctcatcc cctttgtcct tttgggaagc aagtatctat tccagtctca agtcctgcag
     3241 ttgctggagc gcttacgcac ctgagccctt tgtgtcctgg gggagagatg gccacctccg
     3301 tgggctgcga agagccaccc cttcctcttc cgattctcct agcagccact cagagataat
     3361 ttaattccag attggaaacg cccttttagt ttatcagatt ggtaacttac atcctgctgc
     3421 ccagatggca cggacagttt tctttcactt aattattatt ttttttttaa ggattttcgc
     3481 tcctattgtg ttgatgtctt aggtcatttt ctttttttct ttctcttttt ttattaccag
     3541 aggagatgtt ttaatattca tgagaagagg aacattttct agattttttt gttgttatat
     3601 attgagatat aaaatatggc tatgttgctt aagattctca gggatagact tatttttgtt
     3661 aacttcattc tttcctgctg ttaggaacat aggcctaaaa ttgtctcttg agtttgctca
     3721 cccttttgtt ttggtagggt ttttttgttg ttgctgttat tgtttctagt ttttaatctt
     3781 attcattttg aaggattttt ctttctgaac tttttaaatt tttatatttt cctgccatac
     3841 atctacaaag tgggttttga gtgagggcag gtggcccagt ggctttgggt ggcgactgag
     3901 ctggtcccac gaggggagga gggtttatat accccatgac cctgcggctt cttggcgcct
     3961 cctgcccatg aggatcacat cctgtctctc cttgcttcca tctctcatca ctgcccttgg
     4021 acttccgcct tgactgtcca tgaaagacag aaatgggttg ggtagttggg ctcccaacct
     4081 cggatggtga ccgcaacatc ccgtgtgggc ggccggccgc tcctgcagcc cgactctcct
     4141 gccagtgtct ttcaggatgt caacgggtgg tacgattctg gcatttgttt ctcgctcacc
     4201 gtgtgtggaa cactcattcc atgtagaggg tgacgaactc tggattcccc cccaccccca
     4261 ccccgtgccg tgtagacact catcttctgc atgacatgat ctaccattcg gtgtaaacat
     4321 ttgtgtttat aagatttact ttgtttttat ttttctactt ggaactgtac acatttgaaa
     4381 agtacccaaa taaaccagaa gctttatcgt t
//
