LOCUS       NM_022367               3242 bp    mRNA    linear   PRI 03-OCT-2024
DEFINITION  Homo sapiens semaphorin 4A (SEMA4A), transcript variant 1, mRNA.
ACCESSION   NM_022367
VERSION     NM_022367.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 3242)
  AUTHORS   Hou,T., Zhang,P., Tian,H., Luo,Y., Li,J., Zhang,K. and Li,Y.
  TITLE     Semaphorin 4A Maintains Trophoblastic Function via Activating the
            STAT3 Pathway
  JOURNAL   Biomolecules 14 (7), 826 (2024)
   PUBMED   39062540
  REMARK    GeneRIF: Semaphorin 4A Maintains Trophoblastic Function via
            Activating the STAT3 Pathway.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3242)
  AUTHORS   Wei,X., Liu,Z., Shen,Y., Dong,H., Chen,K., Shi,X., Chen,Y., Wang,B.
            and Dong,S.
  TITLE     Semaphorin4A promotes lung cancer by activation of NF-kappaB
            pathway mediated by PlexinB1
  JOURNAL   PeerJ 11, e16292 (2023)
   PUBMED   37901456
  REMARK    GeneRIF: Semaphorin4A promotes lung cancer by activation of
            NF-kappaB pathway mediated by PlexinB1.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3242)
  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
  REMARK    GeneRIF: Tumor-derived semaphorin 4A improves PD-1-blocking
            antibody efficacy by enhancing CD8[+] T cell cytotoxicity and
            proliferation.
REFERENCE   4  (bases 1 to 3242)
  AUTHORS   Eiza,N., Garty,M., Staun-Ram,E., Miller,A. and Vadasz,Z.
  TITLE     The possible involvement of sema3A and sema4A in the pathogenesis
            of multiple sclerosis
  JOURNAL   Clin Immunol 238, 109017 (2022)
   PUBMED   35460904
  REMARK    GeneRIF: The possible involvement of sema3A and sema4A in the
            pathogenesis of multiple sclerosis.
REFERENCE   5  (bases 1 to 3242)
  AUTHORS   Chapoval,S.P., Lee,M., Lemmer,A., Ajayi,O., Qi,X., Neuwald,A.F. and
            Keegan,A.D.
  TITLE     Identifying Function Determining Residues in Neuroimmune Semaphorin
            4A
  JOURNAL   Int J Mol Sci 23 (6), 3024 (2022)
   PUBMED   35328445
  REMARK    GeneRIF: Identifying Function Determining Residues in Neuroimmune
            Semaphorin 4A.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3242)
  AUTHORS   Kumanogoh,A. and Kikutani,H.
  TITLE     Immune semaphorins: a new area of semaphorin research
  JOURNAL   J Cell Sci 116 (Pt 17), 3463-3470 (2003)
   PUBMED   12893810
  REMARK    Review article
REFERENCE   7  (bases 1 to 3242)
  AUTHORS   Kikutani,H. and Kumanogoh,A.
  TITLE     Semaphorins in interactions between T cells and antigen-presenting
            cells
  JOURNAL   Nat Rev Immunol 3 (2), 159-167 (2003)
   PUBMED   12563299
  REMARK    Review article
REFERENCE   8  (bases 1 to 3242)
  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 3242)
  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
REFERENCE   10 (bases 1 to 3242)
  AUTHORS   Fahim,A.T., Daiger,S.P. and Weleber,R.G.
  TITLE     Nonsyndromic Retinitis Pigmentosa Overview
  JOURNAL   (in) Adam MP, Feldman J, Mirzaa GM, Pagon RA, Wallace SE and
            Amemiya A (Eds.);
            GENEREVIEWS(R);
            (1993)
   PUBMED   20301590
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA409501.1, BC020974.1 and
            AY358531.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_022367.3.
            
            Summary: This gene encodes a member of the semaphorin family of
            soluble and transmembrane proteins. Semaphorins are involved in
            numerous functions, including axon guidance, morphogenesis,
            carcinogenesis, and immunomodulation. The encoded protein is a
            single-pass type I membrane protein containing an
            immunoglobulin-like C2-type domain, a PSI domain and a sema domain.
            It inhibits axonal extension by providing local signals to specify
            territories inaccessible for growing axons. It is an activator of
            T-cell-mediated immunity and suppresses vascular endothelial growth
            factor (VEGF)-mediated endothelial cell migration and proliferation
            in vitro and angiogenesis in vivo. Mutations in this gene are
            associated with retinal degenerative diseases including retinitis
            pigmentosa type 35 (RP35) and cone-rod dystrophy type 10 (CORD10).
            Multiple alternatively spliced transcript variants encoding
            different isoforms have been identified.[provided by RefSeq, Sep
            2010].
            
            Transcript Variant: This variant (1) is the longest transcript.
            Variants 1-3 encode the same isoform (1).
            
            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 :: BC020974.1, SRR1660803.161175.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000368285.8/ ENSP00000357268.3
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-12                DA409501.1         92-103
            13-1924             BC020974.1         1-1912
            1925-3242           AY358531.1         1820-3137
FEATURES             Location/Qualifiers
     source          1..3242
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1q22"
     gene            1..3242
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /note="semaphorin 4A"
                     /db_xref="GeneID:64218"
                     /db_xref="HGNC:HGNC:10729"
                     /db_xref="MIM:607292"
     exon            1..180
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            181..348
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     CDS             210..2495
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; sema B; semaphorin-B; sema domain,
                     immunoglobulin domain (Ig), transmembrane domain (TM) and
                     short cytoplasmic domain, (semaphorin) 4A"
                     /codon_start=1
                     /product="semaphorin-4A isoform 1 precursor"
                     /protein_id="NP_071762.2"
                     /db_xref="CCDS:CCDS1132.1"
                     /db_xref="GeneID:64218"
                     /db_xref="HGNC:HGNC:10729"
                     /db_xref="MIM:607292"
                     /translation="MALPALGLDPWSLLGLFLFQLLQLLLPTTTAGGGGQGPMPRVRY
                     YAGDERRALSFFHQKGLQDFDTLLLSGDGNTLYVGAREAILALDIQDPGVPRLKNMIP
                     WPASDRKKSECAFKKKSNETQCFNFIRVLVSYNVTHLYTCGTFAFSPACTFIELQDSY
                     LLPISEDKVMEGKGQSPFDPAHKHTAVLVDGMLYSGTMNNFLGSEPILMRTLGSQPVL
                     KTDNFLRWLHHDASFVAAIPSTQVVYFFFEETASEFDFFERLHTSRVARVCKNDVGGE
                     KLLQKKWTTFLKAQLLCTQPGQLPFNVIRHAVLLPADSPTAPHIYAVFTSQWQVGGTR
                     SSAVCAFSLLDIERVFKGKYKELNKETSRWTTYRGPETNPRPGSCSVGPSSDKALTFM
                     KDHFLMDEQVVGTPLLVKSGVEYTRLAVETAQGLDGHSHLVMYLGTTTGSLHKAVVSG
                     DSSAHLVEEIQLFPDPEPVRNLQLAPTQGAVFVGFSGGVWRVPRANCSVYESCVDCVL
                     ARDPHCAWDPESRTCCLLSAPNLNSWKQDMERGNPEWACASGPMSRSLRPQSRPQIIK
                     EVLAVPNSILELPCPHLSALASYYWSHGPAAVPEASSTVYNGSLLLIVQDGVGGLYQC
                     WATENGFSYPVISYWVDSQDQTLALDPELAGIPREHVKVPLTRVSGGAALAAQQSYWP
                     HFVTVTVLFALVLSGALIILVASPLRALRARGKVQGCETLRPGEKAPLSREQHLQSPK
                     ECRTSASDVDADNNCLGTEVA"
     exon            349..509
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            510..572
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            573..671
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            672..777
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            778..894
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            895..1019
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            1020..1192
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            1193..1343
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            1344..1524
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            1525..1643
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            1644..1801
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            1802..1902
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     exon            1903..3242
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3224..3229
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /note="hexamer: ATTAAA"
     polyA_site      3242
                     /gene="SEMA4A"
                     /gene_synonym="CORD10; RP35; SEMAB; SEMB"
                     /note="major polyA site"
ORIGIN      
        1 agtgctggct ttggcatgat gggcacctgg agggccgcac tcccgttcca gccaggctga
       61 gccttctgtc ccctgcctct ggggcctggg aacccccctt cttctttctc ctgaatggca
      121 cccccgccct agaatccaga caccgagttt cccactgtgg ctggttcaag ggtatgtgag
      181 agctccctgg tgacagtctg tggctgagca tggccctccc agccctgggc ctggacccct
      241 ggagcctcct gggccttttc ctcttccaac tgcttcagct gctgctgccg acgacgaccg
      301 cggggggagg cgggcagggg cccatgccca gggtcagata ctatgcaggg gatgaacgta
      361 gggcacttag cttcttccac cagaagggcc tccaggattt tgacactctg ctcctgagtg
      421 gtgatggaaa tactctctac gtgggggctc gagaagccat tctggccttg gatatccagg
      481 atccaggggt ccccaggcta aagaacatga taccgtggcc agccagtgac agaaaaaaga
      541 gtgaatgtgc ctttaagaag aagagcaatg agacacagtg tttcaacttc atccgtgtcc
      601 tggtttctta caatgtcacc catctctaca cctgcggcac cttcgccttc agccctgctt
      661 gtaccttcat tgaacttcaa gattcctacc tgttgcccat ctcggaggac aaggtcatgg
      721 agggaaaagg ccaaagcccc tttgaccccg ctcacaagca tacggctgtc ttggtggatg
      781 ggatgctcta ttctggtact atgaacaact tcctgggcag tgagcccatc ctgatgcgca
      841 cactgggatc ccagcctgtc ctcaagaccg acaacttcct ccgctggctg catcatgacg
      901 cctcctttgt ggcagccatc ccttcgaccc aggtcgtcta cttcttcttc gaggagacag
      961 ccagcgagtt tgacttcttt gagaggctcc acacatcgcg ggtggctaga gtctgcaaga
     1021 atgacgtggg cggcgaaaag ctgctgcaga agaagtggac caccttcctg aaggcccagc
     1081 tgctctgcac ccagccgggg cagctgccct tcaacgtcat ccgccacgcg gtcctgctcc
     1141 ccgccgattc tcccacagct ccccacatct acgcagtctt cacctcccag tggcaggttg
     1201 gcgggaccag gagctctgcg gtttgtgcct tctctctctt ggacattgaa cgtgtcttta
     1261 aggggaaata caaagagttg aacaaagaaa cttcacgctg gactacttat aggggccctg
     1321 agaccaaccc ccggccaggc agttgctcag tgggcccctc ctctgataag gccctgacct
     1381 tcatgaagga ccatttcctg atggatgagc aagtggtggg gacgcccctg ctggtgaaat
     1441 ctggcgtgga gtatacacgg cttgcagtgg agacagccca gggccttgat gggcacagcc
     1501 atcttgtcat gtacctggga accaccacag ggtcgctcca caaggctgtg gtaagtgggg
     1561 acagcagtgc tcatctggtg gaagagattc agctgttccc tgaccctgaa cctgttcgca
     1621 acctgcagct ggcccccacc cagggtgcag tgtttgtagg cttctcagga ggtgtctgga
     1681 gggtgccccg agccaactgt agtgtctatg agagctgtgt ggactgtgtc cttgcccggg
     1741 acccccactg tgcctgggac cctgagtccc gaacctgttg cctcctgtct gcccccaacc
     1801 tgaactcctg gaagcaggac atggagcggg ggaacccaga gtgggcatgt gccagtggcc
     1861 ccatgagcag gagccttcgg cctcagagcc gcccgcaaat cattaaagaa gtcctggctg
     1921 tccccaactc catcctggag ctcccctgcc cccacctgtc agccttggcc tcttattatt
     1981 ggagtcatgg cccagcagca gtcccagaag cctcttccac tgtctacaat ggctccctct
     2041 tgctgatagt gcaggatgga gttgggggtc tctaccagtg ctgggcaact gagaatggct
     2101 tttcataccc tgtgatctcc tactgggtgg acagccagga ccagaccctg gccctggatc
     2161 ctgaactggc aggcatcccc cgggagcatg tgaaggtccc gttgaccagg gtcagtggtg
     2221 gggccgccct ggctgcccag cagtcctact ggccccactt tgtcactgtc actgtcctct
     2281 ttgccttagt gctttcagga gccctcatca tcctcgtggc ctccccattg agagcactcc
     2341 gggctcgggg caaggttcag ggctgtgaga ccctgcgccc tggggagaag gccccgttaa
     2401 gcagagagca acacctccag tctcccaagg aatgcaggac ctctgccagt gatgtggacg
     2461 ctgacaacaa ctgcctaggc actgaggtag cttaaactct aggcacaggc cggggctgcg
     2521 gtgcaggcac ctggccatgc tggctgggcg gcccaagcac agccctgact aggatgacag
     2581 cagcacaaaa gaccaccttt ctcccctgag aggagcttct gctactctgc atcactgatg
     2641 acactcagca gggtgatgca cagcagtctg cctcccctat gggactccct tctaccaagc
     2701 acatgagctc tctaacaggg tgggggctac ccccagacct gctcctacac tgatattgaa
     2761 gaacctggag aggatccttc agttctggcc attccaggga ccctccagaa acacagtgtt
     2821 tcaagagacc ctaaaaaacc tgcctgtccc aggaccctat ggtaatgaac accaaacatc
     2881 taaacaatca tatgctaaca tgccactcct ggaaactcca ctctgaagct gccgctttgg
     2941 acaccaacac tcccttctcc cagggtcatg cagggatctg ctccctcctg cttcccttac
     3001 cagtcgtgca ccgctgactc ccaggaagtc tttcctgaag tctgaccacc tttcttcttg
     3061 cttcagttgg ggcagactct gatcccttct gccctggcag aatggcaggg gtaatctgag
     3121 ccttcttcac tcctttaccc tagctgaccc cttcacctct ccccctccct tttcctttgt
     3181 tttgggattc agaaaactgc ttgtcagaga ctgtttattt tttattaaaa atataaggct
     3241 ta
//
