LOCUS       NM_001170563            4168 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus semaphorin 4D (Sema4d), mRNA.
ACCESSION   NM_001170563
VERSION     NM_001170563.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 4168)
  AUTHORS   Pan,Q.T., Zang,X.L., Sun,Z.W., Pan,M.Q., Zhu,X.M. and Li,Z.Y.
  TITLE     [The role of semaphorin 4D in the mechanism of
            bisphosphonate-related osteonecrosis of the jaw in rats]
  JOURNAL   Shanghai Kou Qiang Yi Xue 31 (6), 625-631 (2022)
   PUBMED   36970799
  REMARK    GeneRIF: [The role of semaphorin 4D in the mechanism of
            bisphosphonate-related osteonecrosis of the jaw in rats].
REFERENCE   2  (bases 1 to 4168)
  AUTHORS   McDermott,J.E., Goldblatt,D. and Paradis,S.
  TITLE     Class 4 Semaphorins and Plexin-B receptors regulate GABAergic and
            glutamatergic synapse development in the mammalian hippocampus
  JOURNAL   Mol Cell Neurosci 92, 50-66 (2018)
   PUBMED   29981480
REFERENCE   3  (bases 1 to 4168)
  AUTHORS   Bulloj,A., Maminishkis,A., Mizui,M. and Finnemann,S.C.
  TITLE     Semaphorin4D-PlexinB1 Signaling Attenuates Photoreceptor Outer
            Segment Phagocytosis by Reducing Rac1 Activity of RPE Cells
  JOURNAL   Mol Neurobiol 55 (5), 4320-4332 (2018)
   PUBMED   28624895
  REMARK    GeneRIF: These results demonstrate a novel physiological function
            for sema4D/plxnB1 signaling in retinal pigment epithelium
            phagocytosis.
REFERENCE   4  (bases 1 to 4168)
  AUTHORS   Liu,X.L., Song,J., Liu,K.J., Wang,W.P., Xu,C., Zhang,Y.Z. and
            Liu,Y.
  TITLE     Role of inhibition of osteogenesis function by Sema4D/Plexin-B1
            signaling pathway in skeletal fluorosis in vitro
  JOURNAL   J Huazhong Univ Sci Technolog Med Sci 35 (5), 712-715 (2015)
   PUBMED   26489627
  REMARK    GeneRIF: Skeletal fluorosis in vitro is caused by inhibition of
            osteogenesis via Sema4D/Plexin-B1 signaling pathway.
REFERENCE   5  (bases 1 to 4168)
  AUTHORS   Zhang,H.L., Jiang,Z.S. and Wang,F.W.
  TITLE     Analysis of gene expression profiles associated with functional
            recovery after spinal cord injury caused by sema4D knockdown in
            oligodendrocytes
  JOURNAL   Cell Biochem Biophys 69 (3), 655-661 (2014)
   PUBMED   24549858
  REMARK    GeneRIF: sema4D knockdown in OPCs inhibited wound tissue
            angiogenesis and inflammation genes expression and upregulated axon
            regeneration genes expression at early phase
REFERENCE   6  (bases 1 to 4168)
  AUTHORS   Masuda,K., Furuyama,T., Takahara,M., Fujioka,S., Kurinami,H. and
            Inagaki,S.
  TITLE     Sema4D stimulates axonal outgrowth of embryonic DRG sensory
            neurones
  JOURNAL   Genes Cells 9 (9), 821-829 (2004)
   PUBMED   15330859
REFERENCE   7  (bases 1 to 4168)
  AUTHORS   Artigiani,S., Conrotto,P., Fazzari,P., Gilestro,G.F., Barberis,D.,
            Giordano,S., Comoglio,P.M. and Tamagnone,L.
  TITLE     Plexin-B3 is a functional receptor for semaphorin 5A
  JOURNAL   EMBO Rep 5 (7), 710-714 (2004)
   PUBMED   15218527
REFERENCE   8  (bases 1 to 4168)
  AUTHORS   Moreau-Fauvarque,C., Kumanogoh,A., Camand,E., Jaillard,C.,
            Barbin,G., Boquet,I., Love,C., Jones,E.Y., Kikutani,H.,
            Lubetzki,C., Dusart,I. and Chedotal,A.
  TITLE     The transmembrane semaphorin Sema4D/CD100, an inhibitor of axonal
            growth, is expressed on oligodendrocytes and upregulated after CNS
            lesion
  JOURNAL   J Neurosci 23 (27), 9229-9239 (2003)
   PUBMED   14534257
REFERENCE   9  (bases 1 to 4168)
  AUTHORS   Delaire,S., Billard,C., Tordjman,R., Chedotal,A., Elhabazi,A.,
            Bensussan,A. and Boumsell,L.
  TITLE     Biological activity of soluble CD100. II. Soluble CD100, similarly
            to H-SemaIII, inhibits immune cell migration
  JOURNAL   J Immunol 166 (7), 4348-4354 (2001)
   PUBMED   11254688
REFERENCE   10 (bases 1 to 4168)
  AUTHORS   Hall,K.T., Boumsell,L., Schultze,J.L., Boussiotis,V.A.,
            Dorfman,D.M., Cardoso,A.A., Bensussan,A., Nadler,L.M. and
            Freeman,G.J.
  TITLE     Human CD100, a novel leukocyte semaphorin that promotes B-cell
            aggregation and differentiation
  JOURNAL   Proc Natl Acad Sci U S A 93 (21), 11780-11785 (1996)
   PUBMED   8876214
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000017.1.
            
            On Nov 27, 2020 this sequence version replaced NM_001170563.1.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data because no single transcript was available
            for the full length of the gene. The extent of this transcript is
            supported by transcript alignments and orthologous data.
            
            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 :: SRR26360176.103701.1,
                                           SRR26643292.57245.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760386, SAMEA5760389
                                           [ECO:0000348]
            ##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
            1-286               JAXUCZ010000017.1  13650781-13651066
            287-432             JAXUCZ010000017.1  13652510-13652655
            433-495             JAXUCZ010000017.1  13654049-13654111
            496-594             JAXUCZ010000017.1  13655749-13655847
            595-688             JAXUCZ010000017.1  13659557-13659650
            689-802             JAXUCZ010000017.1  13661253-13661366
            803-954             JAXUCZ010000017.1  13662226-13662377
            955-1130            JAXUCZ010000017.1  13663550-13663725
            1131-1287           JAXUCZ010000017.1  13663811-13663967
            1288-1510           JAXUCZ010000017.1  13664990-13665212
            1511-1626           JAXUCZ010000017.1  13666439-13666554
            1627-1799           JAXUCZ010000017.1  13669562-13669734
            1800-1843           JAXUCZ010000017.1  13669807-13669850
            1844-4168           JAXUCZ010000017.1  13671111-13673435
FEATURES             Location/Qualifiers
     source          1..4168
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="17"
                     /map="17p14"
     gene            1..4168
                     /gene="Sema4d"
                     /note="semaphorin 4D"
                     /db_xref="GeneID:306790"
                     /db_xref="RGD:1310554"
     exon            1..286
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     CDS             181..2769
                     /gene="Sema4d"
                     /note="sema domain, immunoglobulin domain (Ig),
                     transmembrane domain (TM) and short cytoplasmic domain,
                     (semaphorin) 4D"
                     /codon_start=1
                     /product="semaphorin-4D precursor"
                     /protein_id="NP_001164034.1"
                     /db_xref="GeneID:306790"
                     /db_xref="RGD:1310554"
                     /translation="MKMCAPVRGLFLALVAVWRTAVAFAPVPRITWEHGEVGLVKFHE
                     PGIFNYSSLLMSEDKDTLYVGAREAVFAVNALDISEKQHEVYWKVSEDKKSKCAEKGK
                     SKQTECLNYIRVLQPLSSTSLYVCGTNAFQPTCDHLNLTSFKFLGKSEDGKGRCPFDP
                     AHSYTSVMVGGELYSGTSYNFLGSEPIISRNSSHSPLRTEYAIPWLNEPSFVFADVIH
                     KSPDGTEAEDDKVYFFFTEVSVEYEFVFKLMIPRVARVCKGDQGGLRTLQKKWTSFLK
                     ARLICSRPDSGLVFNILQDVFVLRAPGLKEPVFYAVFTPQLNNVGLSAVCAYTLSTVE
                     AVFSRGKYMQSATVEQSHTKWVRYNGPVPTPRPGACIDSEARAANYTSSLNLPDKTLQ
                     FVKDHPLMDDSVTPIDNRPKLIKKDVNYTQIVVDRTQALDGTFYDVMFLSTDRGALHK
                     AVILAKEVHVVEETQLFQDFEPVLSLLLSSKKGRKFVYAGSNSGVVQAPLAFCGKHSS
                     CEDCVLARDPYCAWSPAIKACVTLHQAEGSSRGWIQDMSGDTSSCLDKSKESFHQHFF
                     KHGGTAELKCFQKSNLARVVWKFQNGELKAVSPKYGFVGRKHLLIFNLSDGDSGVYQC
                     LSEERVRNKTVSQLLAKHILEVKMVARIPPSPTSQTAQTEGSRITSKMPVASTQGSSP
                     PTPALWATSPRAATLPPKSSSTGTSCEPKMVINTVPQLHSEKTVYLKSSDNRLLMSLL
                     LFLFVLFLCLFSYNCYKGYLPGQCLKFRSALLLAKKKPKSEFSDLEQSVKETLVEPGS
                     FSQQNGDQPKPALDTGYETEQDTITSKVPTDREDSQRIDELSARDKPFDVKCELKFAD
                     SDADGD"
     exon            287..432
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            433..495
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            496..594
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            595..688
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            689..802
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            803..954
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            955..1130
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1131..1287
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1288..1510
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1511..1626
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1627..1799
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1800..1843
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1844..4168
                     /gene="Sema4d"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gttgtaaaag tggcctttgc taacctgaca tgtggggact caagaacccc actccctatg
       61 ggctccagtc tgtgctgctg gccccagctc tggggctctg agaggttcct gctgctacac
      121 cacagcagcc cactgccatt catgtgtgtc tgttgctgaa ggcctcggtg gcccctgccc
      181 atgaagatgt gtgcccccgt cagggggctg ttcttggccc tggtggctgt gtggaggacc
      241 gcggtggcat tcgcccctgt gcctcggatc acctgggagc acggagaggt aggtctggtg
      301 aagtttcacg agccaggcat ctttaactac tcttccttgc tgatgagtga agacaaagac
      361 actctgtatg tgggtgcccg ggaagctgtc tttgcagtga atgcgctgga catctctgag
      421 aagcaacatg aggtatactg gaaggtctct gaagacaaaa aatccaagtg cgcagagaag
      481 gggaaatcaa agcagacgga gtgccttaac tacatccgag tgctgcaacc gcttagcagc
      541 acttccctct acgtgtgtgg gaccaatgcg ttccagccca cctgtgacca cctgaacttg
      601 acctctttca agtttctggg gaaaagcgaa gatggcaaag gaagatgccc cttcgacccc
      661 gcccatagct acacatccgt catggtcggg ggagagctct actctgggac ttcatataat
      721 ttcttgggca gcgaacccat catctctcga aactcttccc acagtcccct gaggacagag
      781 tacgccatcc cttggctaaa cgagcctagc ttcgtctttg ctgacgtgat ccacaagagc
      841 ccagatggta cagaggctga ggatgacaag gtctacttct tctttacgga ggtgtccgtg
      901 gagtacgagt tcgtcttcaa gttgatgatc ccgcgagttg ccagggtgtg caagggcgac
      961 cagggcggcc tgcggacttt gcaaaaaaag tggacctcct tcctaaaggc cagactgatc
     1021 tgctccaggc cagacagtgg cctggtcttc aacattcttc aagatgtgtt tgtgctgagg
     1081 gccccgggcc tcaaggaacc tgtgttctat gcggtcttca ccccacagct gaacaacgtg
     1141 ggtctgtcag cggtctgtgc ctacacgctg tccacggtgg aggccgtctt ctcccgagga
     1201 aagtacatgc agagtgccac agtggagcag tctcacacca agtgggtacg ctacaatggc
     1261 ccagtgccca ctccccggcc tggagcgtgt atcgacagtg aggcccgggc agccaactac
     1321 accagctcct tgaatctccc agacaaaacg ctgcagtttg tcaaagacca ccctttgatg
     1381 gacgactcgg tgacgccaat agacaacagg ccgaaactga tcaaaaaaga tgtcaactac
     1441 acccagatag tggtagacag gacccaggcc ctggatggga ccttctacga cgtcatgttc
     1501 ctcagcacag accggggcgc tctgcataaa gctgtcatcc ttgcaaaaga ggtacacgtg
     1561 gttgaggaga cccaactctt ccaggacttc gaaccggtcc tgtctctgct gctatcatca
     1621 aagaagggga ggaagtttgt ctatgctggc tccaactcag gagtggtcca agctcccctg
     1681 gccttctgcg gaaagcacag tagctgtgaa gactgtgtgc tagcacggga cccctactgc
     1741 gcctggagcc cagccatcaa ggcctgtgtt accttgcacc aggcagaggg ctctagcagg
     1801 ggctggattc aggacatgag tggcgacacg tcctcgtgcc tggataagag taaagaaagt
     1861 ttccatcagc attttttcaa gcacggcggc acagcagaac tcaagtgttt ccaaaagtcc
     1921 aacctggccc gggtggtgtg gaagttccag aacggcgagt tgaaggctgt gagtcccaag
     1981 tatggctttg tgggcaggaa gcacctgctc atctttaacc tgtcagacgg agacagcggt
     2041 gtgtaccagt gcctgtcaga ggaaagggtc aggaataaaa cggtctccca gctgctcgcc
     2101 aagcacatcc tggaagtgaa aatggtagct cggatccccc catcacctac ctcacagact
     2161 gctcagacag aaggtagtag gatcacatcc aaaatgcctg tggcgtctac ccaggggtcc
     2221 tctcccccta ccccggctct gtgggcaacc tcccccaggg ctgccaccct acctcccaag
     2281 tcctcctcca ccggcacgtc ctgtgaacca aaaatggtca tcaacacggt cccacagctc
     2341 cactcggaga agacagtgta tctcaagtcc agtgacaacc gcctgctcat gtctctcctc
     2401 ctcttcctct ttgtcctctt cctctgcctc ttttcctaca actgctacaa gggctacctg
     2461 cccggacagt gcttaaagtt ccgctcagcc ctgctgctcg caaagaaaaa acccaagtca
     2521 gagttctctg acctggagca gagtgtgaag gagacgctgg tagaacctgg gagcttctcg
     2581 cagcagaacg gcgaccagcc caagccagcc ttggataccg gctatgaaac cgagcaggac
     2641 actatcacca gcaaggtccc caccgatcga gaggactcgc aacgtatcga cgagctctcc
     2701 gccagggaca aaccgtttga tgtcaagtgt gaactcaagt ttgcagactc ggatgccgac
     2761 ggggactgag gccagtgtgt cccagcccgt gcccctccgt cttcgtggag agtgttgtgt
     2821 tgaacctatt cagtagccga gtcttgtcac tgtgcaccag cctcagtctt ttgtcccttt
     2881 ctctcttggg ttgagcctgt gacttgtccc ctttgtcctt ttgggaaaca agtatctatt
     2941 caagcctcaa gtcccggcag tttttggagc gcttactaca cacctgagcc ctttgtgtcc
     3001 tgggggagag atggccacct ccgtgggctg agaagaacca ccccttcctc ttccgctcct
     3061 cgaagcagcc actgagagat aatttaattc cagattggaa atgacctttt tggtttatca
     3121 gattggtaac ttaatctcct gccatccggg tggcacggac gtttttcttt tacttcgtta
     3181 ttttttttag gatttgcgct cctactgtgt tgatgtctta ggtcattttt ttttttttaa
     3241 gttaccagag gagatgtttt gatattcatg agaagaagaa cattttctag attttttttt
     3301 ttttttggtt acatattgag ataaaatatg cctctgttgc ttaagattct cagggataga
     3361 cgtgattttt gctaatttct ttcctgctgt tcggaacgta ggcctaaaac tgtctcttga
     3421 gctcacatac tcaccctttc cttttggtgg gttttttttt tttttttttt gtttttttgt
     3481 tttattaatc ttactcattt cgaaggattt tctttatgag cttttgtttt gtttttgttt
     3541 tgtttttttg tttttctctt tttcctgccg tacatcatct acgaggtgcg ttttgagtga
     3601 gggcagatgg cccagtggct tcgggtggcc cagtggctgt gggtggcagt tgagctggtc
     3661 ctgtgagggg aggagggctt agacgccacg gccctgctgc ttctcggcac ctcctgtccc
     3721 gatgggtggc gtcttcatga ggatcacatc ctgtctctgc tggcttccat ctcgcacctc
     3781 tgcccttgga cttccacctt gactgtccac aaaagacaga aatgggctgg ctagttgggc
     3841 tcccggcctc ggacggtggc cgcaacgtcc cgtgtgggcg gctgccgctg cagcctgact
     3901 cctgccggtg tctttcagga tgtgaacggg tggtacgaat cttgacattt gtttctcact
     3961 tcctgtgtat gaaacgacac tcattccatg tagagggtga cggactctgg atccccccct
     4021 tgtcgtgtag acactcatct tcagcgtgac ctggtcctgc cattcggtgt aaacatttgt
     4081 gtttataaga tttactttgt ttttattttt ctacttggaa ctgtacatat ttgaaaaagt
     4141 acccaaataa accagaagct ttatcgtt
//
