LOCUS       NM_001378316            4302 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 6, mRNA.
ACCESSION   NM_001378316
VERSION     NM_001378316.1
KEYWORDS    RefSeq.
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 4302)
  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 4302)
  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 4302)
  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 4302)
  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 4302)
  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 4302)
  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 4302)
  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 4302)
  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 4302)
  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 4302)
  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
            AC126547.4.
            
            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 :: SRR13422592.309141.1,
                                           SRR13422597.123977.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-78                AC126547.4         148421-148498       c
            79-142              AC126547.4         143559-143622       c
            143-461             AC126547.4         134276-134594       c
            462-607             AC126547.4         132595-132740       c
            608-670             AC126547.4         131370-131432       c
            671-769             AC126547.4         129558-129656       c
            770-863             AC126547.4         123846-123939       c
            864-977             AC126547.4         122744-122857       c
            978-1129            AC126547.4         121731-121882       c
            1130-1305           AC126547.4         120501-120676       c
            1306-1462           AC126547.4         120252-120408       c
            1463-1685           AC126547.4         118964-119186       c
            1686-1801           AC126547.4         117927-118042       c
            1802-1974           AC126547.4         114125-114297       c
            1975-2018           AC126547.4         114005-114048       c
            2019-4302           AC126547.4         110300-112583       c
FEATURES             Location/Qualifiers
     source          1..4302
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 26.16 cM"
     gene            1..4302
                     /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..78
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            79..142
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            143..461
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     CDS             356..2941
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 6; 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_001365245.1"
                     /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            462..607
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            608..670
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            671..769
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            770..863
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            864..977
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            978..1129
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1130..1305
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1306..1462
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1463..1685
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1686..1801
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1802..1974
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1975..2018
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     exon            2019..4302
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4280..4285
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /note="hexamer: AATAAA"
     polyA_site      4302
                     /gene="Sema4d"
                     /gene_synonym="CD100; coll-4; Semacl2; Semaj; Semcl2"
                     /note="major polyA site"
ORIGIN      
        1 agggacacgg tgaatgctgt tctgatagga gccatcttta tgtctttatg gatcatttcc
       61 tgcctccagt gacttcagag atgtcttcct gaagcttcca ttctaaaggt gccaggaaca
      121 accccagaga ctcacggcac aggtcagacg ggaacaccgg cagccttggc atgacgtcgt
      181 gaaggtggcc attgctaacc tgacatgtgg ggactcagga accccacccc ttatgggctc
      241 cagtctgtgc tgctggcccc agctctgggg ctctaagagg tccttgctgc taccccacag
      301 cagcctgctg ccatccatgt gtgcccgttg ctgaaggcct cggtggcccc tgcccatgag
      361 gatgtgtgcc cccgttaggg ggctgttctt ggccctggtg gtagtgttga gaaccgcggt
      421 ggcatttgca cctgtgcctc ggctcacctg ggaacatgga gaggtaggtc tggtgcagtt
      481 tcacaagcca ggcatcttta actactcggc cttgctgatg agtgaggaca aagacactct
      541 gtatgtaggc gcccgggaag cagtctttgc agtgaatgcg ctgaacatct ctgagaagca
      601 acatgaggta tattggaagg tctctgaaga caaaaaatcc aagtgtgcag agaaggggaa
      661 atcaaagcag acggaatgcc taaactacat tcgagtacta cagccactaa gcagcacttc
      721 cctctatgtg tgtgggacca atgcgttcca gcccacctgt gaccacctga acttgacatc
      781 cttcaagttt ctggggaaaa gtgaagatgg caaaggaaga tgccccttcg accccgccca
      841 cagctacaca tcagtcatgg ttgggggcga gctctactct gggacgtcct ataatttctt
      901 gggcagtgaa cccatcatct ctcgaaactc ttcccacagt cccttgagga cggagtatgc
      961 catcccgtgg ctgaacgagc ctagcttcgt ctttgctgac gtgatccaga aaagcccaga
     1021 tggtccggag ggtgaagatg acaaggtcta cttctttttt acggaggtat ccgtggagta
     1081 cgaattcgtc ttcaagttga tgatcccgcg agttgccagg gtgtgcaagg gcgaccaggg
     1141 cggcctgcgg actttgcaaa aaaagtggac ctccttccta aaggccaggc tgatctgctc
     1201 caagccagac agtggcctgg tcttcaacat acttcaggat gtgtttgtgc tgagggcccc
     1261 gggcctcaag gagcctgtgt tctatgcggt cttcacccca cagctgaaca atgtgggtct
     1321 gtcagcggtg tgcgcctaca cactggccac ggtggaggca gtcttctccc gtggaaagta
     1381 catgcagagt gccacagtgg agcagtctca caccaagtgg gtgcgctaca atggcccagt
     1441 gcccactccc cgacctggag cgtgtatcga cagtgaggcc cgggcagcca actacaccag
     1501 ctccttgaat ctcccagaca aaacactgca gtttgtaaaa gaccaccctt tgatggatga
     1561 ctcagtgacc ccgatagaca acagacccaa gctgatcaaa aaagatgtaa actacaccca
     1621 gatagtggta gacaggaccc aggccctgga tgggactttc tacgacgtca tgttcatcag
     1681 cacagaccgg ggagctctgc ataaagcagt catcctcaca aaagaggtgc atgtcatcga
     1741 ggagacccaa ctcttccggg actctgaacc ggtcctaact ctgctgctat cgtcaaagaa
     1801 ggggaggaag tttgtctatg caggctccaa ctctggagtg gtccaagcgc ccctggcatt
     1861 ctgcgaaaag cacggtagct gtgaagactg tgtgttagca cgggacccct actgtgcctg
     1921 gagcccagcc atcaaggcct gtgttaccct gcaccaggaa gaggcctcca gcaggggctg
     1981 gattcaggac atgagcggtg acacatcctc atgcctggat aagagtaaag aaagtttcaa
     2041 ccagcatttt ttcaagcacg gcggcacagc ggaactcaaa tgtttccaaa agtccaacct
     2101 agcccgggtg gtatggaagt tccagaatgg cgagttgaag gccgcaagtc ccaagtacgg
     2161 ctttgtgggc aggaagcacc tgctcatctt caacctgtcg gacggagaca gcggcgtgta
     2221 ccagtgcctg tcagaggaaa gggtgaggaa taaaacggtc tcccagctgc tggccaagca
     2281 cgttctggaa gtgaagatgg tacctcggac ccccccctca cctacctcag aggatgctca
     2341 gacagaaggt agtaagatca catccaaaat gccggttgca tctacccagg ggtcctctcc
     2401 ccctaccccg gctctgtggg caacctcccc cagagccgcc accctacctc ccaagtcctc
     2461 ctccggcaca tcctgtgaac caaagatggt catcaacacg gtcccccagc tccactcaga
     2521 gaagacggtg tatctcaagt ccagtgacaa ccgcctgctc atgtctctcc tcctcttcat
     2581 ctttgtcctc ttcctctgcc tcttttccta caactgctac aagggctacc tgcccggaca
     2641 gtgcttaaaa ttccgctcag ccctgctgct tggaaagaaa acacccaagt cagacttctc
     2701 tgacctggag cagagtgtga aggagacact ggtcgagcct gggagcttct cccagcagaa
     2761 cggcgaccac cccaagccag ccctggatac gggctatgaa acggagcagg acaccatcac
     2821 cagcaaagtc cccacggatc gtgaggactc gcaacggatc gatgaactct ctgcccggga
     2881 caaaccgttt gatgtcaagt gtgaactgaa gtttgcagat tcggatgctg acggggactg
     2941 aggccagcgt gtcccagccc atgcccctct gtcttcgtgg agagtgttgt gttgagccca
     3001 ttcagtagcc gagtcttgtc actctgtgcc agcctcagtc ctgtgtccct ttttctcttg
     3061 ggttgagcct gtggctcatc ccctttgtcc ttttgggaag caagtatcta ttccagtctc
     3121 aagtcctgca gttgctggag cgcttacgca cctgagccct ttgtgtcctg ggggagagat
     3181 ggccacctcc gtgggctgcg aagagccacc ccttcctctt ccgattctcc tagcagccac
     3241 tcagagataa tttaattcca gattggaaac gcccttttag tttatcagat tggtaactta
     3301 catcctgctg cccagatggc acggacagtt ttctttcact taattattat ttttttttta
     3361 aggattttcg ctcctattgt gttgatgtct taggtcattt tctttttttc tttctctttt
     3421 tttattacca gaggagatgt tttaatattc atgagaagag gaacattttc tagatttttt
     3481 tgttgttata tattgagata taaaatatgg ctatgttgct taagattctc agggatagac
     3541 ttatttttgt taacttcatt ctttcctgct gttaggaaca taggcctaaa attgtctctt
     3601 gagtttgctc acccttttgt tttggtaggg tttttttgtt gttgctgtta ttgtttctag
     3661 tttttaatct tattcatttt gaaggatttt tctttctgaa ctttttaaat ttttatattt
     3721 tcctgccata catctacaaa gtgggttttg agtgagggca ggtggcccag tggctttggg
     3781 tggcgactga gctggtccca cgaggggagg agggtttata taccccatga ccctgcggct
     3841 tcttggcgcc tcctgcccat gaggatcaca tcctgtctct ccttgcttcc atctctcatc
     3901 actgcccttg gacttccgcc ttgactgtcc atgaaagaca gaaatgggtt gggtagttgg
     3961 gctcccaacc tcggatggtg accgcaacat cccgtgtggg cggccggccg ctcctgcagc
     4021 ccgactctcc tgccagtgtc tttcaggatg tcaacgggtg gtacgattct ggcatttgtt
     4081 tctcgctcac cgtgtgtgga acactcattc catgtagagg gtgacgaact ctggattccc
     4141 ccccaccccc accccgtgcc gtgtagacac tcatcttctg catgacatga tctaccattc
     4201 ggtgtaaaca tttgtgttta taagatttac tttgttttta tttttctact tggaactgta
     4261 cacatttgaa aagtacccaa ataaaccaga agctttatcg tt
//
