LOCUS       NM_001428658            3096 bp    mRNA    linear   ROD 15-JUN-2024
DEFINITION  Mus musculus sema domain, immunoglobulin domain (Ig), transmembrane
            domain (TM) and short cytoplasmic domain, (semaphorin) 4A (Sema4a),
            transcript variant 6, mRNA.
ACCESSION   NM_001428658 XM_011240051
VERSION     NM_001428658.1
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 3096)
  AUTHORS   Bhat,G.P., Maurizio,A., Motta,A., Podini,P., Diprima,S.,
            Malpighi,C., Brambilla,I., Martins,L., Badaloni,A., Boselli,D.,
            Bianchi,F., Pellegatta,M., Genua,M., Ostuni,R., Del Carro,U.,
            Taveggia,C., de Pretis,S., Quattrini,A. and Bonanomi,D.
  TITLE     Structured wound angiogenesis instructs mesenchymal barrier
            compartments in the regenerating nerve
  JOURNAL   Neuron 112 (2), 209-229 (2024)
   PUBMED   37972594
REFERENCE   2  (bases 1 to 3096)
  AUTHORS   Naito,Y., Koyama,S., Masuhiro,K., Hirai,T., Uenami,T., Inoue,T.,
            Osa,A., Machiyama,H., Watanabe,G., Sax,N., Villa,J.,
            Kinugasa-Katayama,Y., Nojima,S., Yaga,M., Hosono,Y., Okuzaki,D.,
            Satoh,S., Tsuda,T., Nakanishi,Y., Suga,Y., Morita,T., Fukushima,K.,
            Nishide,M., Shiroyama,T., Miyake,K., Iwahori,K., Hirata,H.,
            Nagatomo,I., Yano,Y., Tamiya,M., Kumagai,T., Takemoto,N.,
            Inohara,H., Yamasaki,S., Yamashita,K., Aoshi,T., Akbay,E.A.,
            Hosen,N., Shintani,Y., Takamatsu,H., Mori,M., Takeda,Y. and
            Kumanogoh,A.
  TITLE     Tumor-derived semaphorin 4A improves PD-1-blocking antibody
            efficacy by enhancing CD8+ T cell cytotoxicity and proliferation
  JOURNAL   Sci Adv 9 (20), eade0718 (2023)
   PUBMED   37205755
REFERENCE   3  (bases 1 to 3096)
  AUTHORS   Martins,L.F., Brambilla,I., Motta,A., de Pretis,S., Bhat,G.P.,
            Badaloni,A., Malpighi,C., Amin,N.D., Imai,F., Almeida,R.D.,
            Yoshida,Y., Pfaff,S.L. and Bonanomi,D.
  TITLE     Motor neurons use push-pull signals to direct vascular remodeling
            critical for their connectivity
  JOURNAL   Neuron 110 (24), 4090-4107 (2022)
   PUBMED   36240771
REFERENCE   4  (bases 1 to 3096)
  AUTHORS   Xu,R., Hoss,C., Swiercz,J.M., Brandt,D.T., Lutz,V., Petersen,N.,
            Li,R., Zhao,D., Oleksy,A., Creigh-Pulatmen,T., Trokter,M.,
            Fedorova,M., Atzberger,A., Strandby,R.B., Olsen,A.A., Achiam,M.P.,
            Matthews,D., Huber,M., Grone,H.J., Offermanns,S. and Worzfeld,T.
  TITLE     A semaphorin-plexin-Rasal1 signaling pathway inhibits gastrin
            expression and protects against peptic ulcers
  JOURNAL   Sci Transl Med 14 (654), eabf1922 (2022)
   PUBMED   35857828
REFERENCE   5  (bases 1 to 3096)
  AUTHORS   Suga,Y., Nagatomo,I., Kinehara,Y., Koyama,S., Okuzaki,D., Osa,A.,
            Naito,Y., Takamatsu,H., Nishide,M., Nojima,S., Ito,D., Tsuda,T.,
            Nakatani,T., Nakanishi,Y., Futami,Y., Koba,T., Satoh,S., Hosono,Y.,
            Miyake,K., Fukushima,K., Shiroyama,T., Iwahori,K., Hirata,H.,
            Takeda,Y. and Kumanogoh,A.
  TITLE     IL-33 Induces Sema4A Expression in Dendritic Cells and Exerts
            Antitumor Immunity
  JOURNAL   J Immunol 207 (5), 1456-1467 (2021)
   PUBMED   34380650
REFERENCE   6  (bases 1 to 3096)
  AUTHORS   Oster,S.F., Bodeker,M.O., He,F. and Sretavan,D.W.
  TITLE     Invariant Sema5A inhibition serves an ensheathing function during
            optic nerve development
  JOURNAL   Development 130 (4), 775-784 (2003)
   PUBMED   12506007
REFERENCE   7  (bases 1 to 3096)
  AUTHORS   Dionne,M.S., Brunet,L.J., Eimon,P.M. and Harland,R.M.
  TITLE     Noggin is required for correct guidance of dorsal root ganglion
            axons
  JOURNAL   Dev Biol 251 (2), 283-293 (2002)
   PUBMED   12435358
REFERENCE   8  (bases 1 to 3096)
  AUTHORS   Kumanogoh,A., Marukawa,S., Suzuki,K., Takegahara,N., Watanabe,C.,
            Ch'ng,E., Ishida,I., Fujimura,H., Sakoda,S., Yoshida,K. and
            Kikutani,H.
  TITLE     Class IV semaphorin Sema4A enhances T-cell activation and interacts
            with Tim-2
  JOURNAL   Nature 419 (6907), 629-633 (2002)
   PUBMED   12374982
REFERENCE   9  (bases 1 to 3096)
  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 3096)
  AUTHORS   Puschel,A.W., Adams,R.H. and Betz,H.
  TITLE     Murine semaphorin D/collapsin is a member of a diverse gene family
            and creates domains inhibitory for axonal extension
  JOURNAL   Neuron 14 (5), 941-948 (1995)
   PUBMED   7748561
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC102388.7.
            
            On Mar 19, 2024 this sequence version replaced XM_011240051.3.
            
            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 :: SRR13422597.276330.1,
                                           SRR13422601.2016937.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-83                AC102388.7         35582-35664
            84-251              AC102388.7         36076-36243
            252-412             AC102388.7         37791-37951
            413-475             AC102388.7         38840-38902
            476-574             AC102388.7         39136-39234
            575-680             AC102388.7         39472-39577
            681-797             AC102388.7         40295-40411
            798-922             AC102388.7         40810-40934
            923-1095            AC102388.7         41070-41242
            1096-1246           AC102388.7         42781-42931
            1247-1427           AC102388.7         50044-50224
            1428-1546           AC102388.7         52361-52479
            1547-1704           AC102388.7         52582-52739
            1705-1802           AC102388.7         53022-53119
            1803-3096           AC102388.7         53670-54963
FEATURES             Location/Qualifiers
     source          1..3096
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="3"
                     /map="3 38.83 cM"
     gene            1..3096
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="sema domain, immunoglobulin domain (Ig),
                     transmembrane domain (TM) and short cytoplasmic domain,
                     (semaphorin) 4A"
                     /db_xref="GeneID:20351"
                     /db_xref="MGI:MGI:107560"
     exon            1..83
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    62..64
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="upstream in-frame stop codon"
     exon            84..251
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     CDS             113..2395
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="semaphorin-4A; sema B; semaphorin-B"
                     /codon_start=1
                     /product="semaphorin-4A precursor"
                     /protein_id="NP_001415587.1"
                     /db_xref="GeneID:20351"
                     /db_xref="MGI:MGI:107560"
                     /translation="

MALPSLGQDSWSLLRVFFFQLFLLPSLPPASGTGGQGPMPRVKYHAGDGHRALSFFQQKGLRDFDTLLLSDDGNTLYVGAREAVLALNIQNPGIPRLKNMIPWPASERKKTECAFKKKSNETQCFNFIRVLVSYNATHLYACGTFAFSPACTFIELQDSLLLPILIDKVMDGKGQSPFDPVHKHTAVLVDGMLYSGTMNNFLGSEPILMRTLGSQPVLKTDIFLRWLHADASFVAAIPSTQVVYFFFEETASEFDFFEELYISRVAQVCKNDVGGEKLLQKKWTTFLKAQLLCAQPGQLPFNIIRHAVLLPADSPSVSRIYAVFTSQWQVGGTRSSAVCAFSLTDIERVFKGKYKELNKETSRWTTYRGSEVSPRPGSCSMGPSSDKALTFMKDHFLMDEHVVGTPLLVKSGVEYTRLAVESARGLDGSSHVVMYLGTSTGSLHKAVVPQDSSAYLVEEIQLSPDSEPVRNLQLAPAQGAVFAGFSGGIWRVPRANCSVYESCVDCVLARDPHCAWDPESRLCSLLSGSTKPWKQDMERGNPEWVCTRGPMARSPRRQSPPQLIKEVLTVPNSILELPCPHLSALASYHWSHGRAKISEASATVYNGSLLLLPQDGVGGLYQCVATENGYSYPVVSYWVDSQDQPLALDPELAGVPRERVQVPLTRVGGGASMAAQRSYWPHFLIVTVLLAIVLLGVLTLLLASPLGALRARGKVQGCGMLPPREKAPLSRDQHLQPSKDHRTSASDVDADNNHLGAEVA"

     sig_peptide     113..208
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="COORDINATES: ab initio prediction:SignalP:6.0"
     mat_peptide     209..2392
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /product="Semaphorin-4A. /id=PRO_0000032323"
                     /note="propagated from UniProtKB/Swiss-Prot (Q62178.2)"
     misc_feature    470..472
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="N-linked (GlcNAc...) asparagine.
                     /evidence=ECO:0000255; propagated from
                     UniProtKB/Swiss-Prot (Q62178.2); glycosylation site"
     misc_feature    515..517
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="N-linked (GlcNAc...) asparagine.
                     /evidence=ECO:0000255; propagated from
                     UniProtKB/Swiss-Prot (Q62178.2); glycosylation site"
     misc_feature    1598..1600
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="N-linked (GlcNAc...) asparagine.
                     /evidence=ECO:0000255; propagated from
                     UniProtKB/Swiss-Prot (Q62178.2); glycosylation site"
     misc_feature    1928..1930
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="N-linked (GlcNAc...) asparagine.
                     /evidence=ECO:0000255; propagated from
                     UniProtKB/Swiss-Prot (Q62178.2); glycosylation site"
     misc_feature    2159..2221
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="propagated from UniProtKB/Swiss-Prot (Q62178.2);
                     transmembrane region"
     misc_feature    2270..2392
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="propagated from UniProtKB/Swiss-Prot (Q62178.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            252..412
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            413..475
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            476..574
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            575..680
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            681..797
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            798..922
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            923..1095
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            1096..1246
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            1247..1427
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            1428..1546
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            1547..1704
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            1705..1802
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     exon            1803..3096
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3069..3074
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="hexamer: ATTAAA"
     polyA_site      3096
                     /gene="Sema4a"
                     /gene_synonym="Semab; SemB"
                     /note="major polyA site"
ORIGIN      

gaagaaggctagatgggcccgattaagcaagagtcagagcccctgggggctgaggagagggtaggctgtctgcctgggttgggaaccatctggtgaccatctcaggctgaccatggccctaccatccctgggccaggactcatggagtctcctgcgtgtttttttcttccaactcttcctgctgccatcactgccacctgcttctgggactggtggtcaggggcccatgcccagagtcaaataccatgctggagacgggcacagggccctcagcttcttccaacaaaaaggcctccgagactttgacacgctgctcctgagtgacgatggcaacactctctatgtgggggctcgagaggccgtcctggccttgaatatccagaacccaggaatcccaaggctaaagaacatgataccctggccagccagtgagagaaaaaagaccgaatgtgcctttaagaagaagagcaatgagacacagtgtttcaacttcattcgagtcctggtctcttacaatgctactcacctctatgcctgtgggacctttgccttcagccctgcctgtaccttcattgaactccaagattccctcctgttgcccatcttgatagacaaggtcatggacgggaagggccaaagcccctttgaccctgttcacaagcacacagctgtcttggtcgatgggatgctttattccggcaccatgaacaacttcctgggcagcgagcccatcctgatgcggacactgggatcccagcctgttctcaagactgacatcttcttacgctggctgcacgcggatgcctccttcgtggcagccattccatccacccaggtcgtctatttcttctttgaggagacagccagcgagtttgacttctttgaagagctgtatatatccagggtggctcaagtctgcaagaacgacgtgggcggtgaaaagctgctgcagaagaagtggaccaccttcctcaaagcccagttgctctgcgctcagccagggcagctgccattcaacatcatccgccacgcggtcctgctgcccgccgattctccctctgtttcccgcatctacgcagtctttacctcccagtggcaggttggcgggaccaggagctcagcagtctgtgccttctctctcacggacattgagcgagtctttaaagggaagtacaaggagctgaacaaggagacctcccgctggaccacttaccggggctcagaggtcagcccgaggccaggcagttgctccatgggcccctcctctgacaaagccttgaccttcatgaaggaccattttctgatggatgagcacgtggtaggaacacccctgctggtgaagtctggtgtggagtacacacggcttgctgtggagtcagctcggggccttgatgggagcagccatgtggtcatgtatctgggtacctccacggggtccctgcacaaggctgtggtgcctcaggacagcagtgcttatctcgtggaggagattcagctgagccctgactctgagcctgttcgaaacctgcagctggcccccgcccagggtgcagtgtttgcaggcttctctggaggcatctggagagttcccagggccaattgcagtgtctacgagagctgtgtggactgtgtgcttgccagggaccctcactgtgcctgggaccctgaatcaagactctgcagccttctgtctggctctaccaagccttggaagcaggacatggaacgcggcaacccggagtgggtatgcacccgtggccccatggccaggagcccccggcgtcagagcccccctcaactaattaaagaagtcctgacagtccccaactccatcctggagctgccctgcccccacctgtcagcactggcctcttaccactggagtcatggccgagccaaaatctcagaagcctctgctaccgtctacaatggctccctcttgctgctgccgcaggatggtgtcgggggcctctaccagtgtgtggcgactgagaacggctactcataccctgtggtctcctattgggtagacagccaggaccagcccctggcgctggaccctgagctggcgggcgttccccgtgagcgtgtgcaggtcccgctgaccagggtcggaggcggagcttccatggctgcccagcggtcctactggccccattttctcatcgttaccgtcctcctggccatcgtgctcctgggagtgctcactctcctcctcgcttccccactgggggcgctgcgggctcggggtaaggttcagggctgtgggatgctgccccccagggaaaaggctccactgagcagggaccagcacctccagccctccaaggaccacaggacctctgccagtgacgtagatgccgacaacaaccatctgggcgccgaagtggcttaaacagggacacagatccgcagctgagcagagcaagccactggccttgttggctatgccaggcacagtgccactctgaccagggtaggaggctctcctgctaacgtgtgtcacctacagcacccagtaggtcctcccctgtgggactctcttctgcaagcacattgggctgtctccatacctgtacttgtgctgtgacaggaagagccagacaggtttctttgattttgattgacccaagagccctcctgtaacaaacgtgctccaggagaccatgaaaggtgtggctgtctgggattctgtggtgacaaacctaagcatccgagcaagctggggctattcctgcaaactccatcctgaacgctgtcactctagaagcagctgctgctttgaacaccagcccaccctccttcccaagagtctctatggagttggccccttgtgtttcctttaccagtcatgccatactgtttgggaagtcatctctgaagtctaaccaccttccttcttgcttcagtttggacagattgttattattgtctctgccctggctagaatggggggcataatctgagccttgttcccttgtccagtgtggctgacccttgacctcttccttcctcctccctttgttttgggattcagaaaactgcttgtcacagacaatttattttttattaaaaaagatataagctttaaagaaa

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