LOCUS       NM_001005914            3285 bp    mRNA    linear   PRI 22-SEP-2024
DEFINITION  Homo sapiens semaphorin 3B (SEMA3B), transcript variant 2, mRNA.
ACCESSION   NM_001005914 XM_005277530
VERSION     NM_001005914.3
KEYWORDS    RefSeq.
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 3285)
  AUTHORS   Yombo,D.J.K., Ghandikota,S., Vemulapalli,C.P., Singh,P.,
            Jegga,A.G., Hardie,W.D. and Madala,S.K.
  TITLE     SEMA3B inhibits TGFbeta-induced extracellular matrix protein
            production and its reduced levels are associated with a decline in
            lung function in IPF
  JOURNAL   Am J Physiol Cell Physiol 326 (6), C1659-C1668 (2024)
   PUBMED   38646784
  REMARK    GeneRIF: SEMA3B inhibits TGFbeta-induced extracellular matrix
            protein production and its reduced levels are associated with a
            decline in lung function in IPF.
REFERENCE   2  (bases 1 to 3285)
  AUTHORS   Martinez-Ramos,S., Rafael-Vidal,C., Malvar-Fernandez,B., Perez,N.,
            Mourino,C., Perez,S.G., Maceiras Pan,F.J., Conde,C.,
            Pego-Reigosa,J.M. and Garcia,S.
  TITLE     Semaphorin3B promotes an anti-inflammatory and pro-resolving
            phenotype in macrophages from rheumatoid arthritis patients in a
            MerTK-dependent manner
  JOURNAL   Front Immunol 14, 1268144 (2024)
   PUBMED   38283352
  REMARK    GeneRIF: Semaphorin3B promotes an anti-inflammatory and
            pro-resolving phenotype in macrophages from rheumatoid arthritis
            patients in a MerTK-dependent manner.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3285)
  AUTHORS   Igea,A., Carvalheiro,T., Malvar-Fernandez,B., Martinez-Ramos,S.,
            Rafael-Vidal,C., Niemantsverdriet,E., Varade,J.,
            Fernandez-Carrera,A., Jimenez,N., McGarry,T., Rodriguez-Trillo,A.,
            Veale,D., Fearon,U., Conde,C., Pego-Reigosa,J.M.,
            Gonzalez-Fernandez,A., Reedquist,K.A., Radstake,T.R.D.J., van der
            Helm-Van Mil,A. and Garcia,S.
  TITLE     Central Role of Semaphorin 3B in a Serum-Induced Arthritis Model
            and Reduced Levels in Patients With Rheumatoid Arthritis
  JOURNAL   Arthritis Rheumatol 74 (6), 972-983 (2022)
   PUBMED   35001548
  REMARK    GeneRIF: Central Role of Semaphorin 3B in a Serum-Induced Arthritis
            Model and Reduced Levels in Patients With Rheumatoid Arthritis.
REFERENCE   4  (bases 1 to 3285)
  AUTHORS   Sethi,S., Debiec,H., Madden,B., Vivarelli,M., Charlesworth,M.C.,
            Ravindran,A., Gross,L., Ulinski,T., Buob,D., Tran,C.L., Emma,F.,
            Diomedi-Camassei,F., Fervenza,F.C. and Ronco,P.
  TITLE     Semaphorin 3B-associated membranous nephropathy is a distinct type
            of disease predominantly present in pediatric patients
  JOURNAL   Kidney Int 98 (5), 1253-1264 (2020)
   PUBMED   32534052
  REMARK    GeneRIF: Semaphorin 3B-associated membranous nephropathy is a
            distinct type of disease predominantly present in pediatric
            patients.
REFERENCE   5  (bases 1 to 3285)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   6  (bases 1 to 3285)
  AUTHORS   Tse,C., Xiang,R.H., Bracht,T. and Naylor,S.L.
  TITLE     Human Semaphorin 3B (SEMA3B) located at chromosome 3p21.3
            suppresses tumor formation in an adenocarcinoma cell line
  JOURNAL   Cancer Res 62 (2), 542-546 (2002)
   PUBMED   11809707
  REMARK    GeneRIF: Human Semaphorin 3B (SEMA3B) located at chromosome 3p21.3
            suppresses tumor formation in an adenocarcinoma cell line.
REFERENCE   7  (bases 1 to 3285)
  AUTHORS   Takahashi,T., Nakamura,F., Jin,Z., Kalb,R.G. and Strittmatter,S.M.
  TITLE     Semaphorins A and E act as antagonists of neuropilin-1 and agonists
            of neuropilin-2 receptors
  JOURNAL   Nat Neurosci 1 (6), 487-493 (1998)
   PUBMED   10196546
REFERENCE   8  (bases 1 to 3285)
  AUTHORS   Sekido,Y., Bader,S., Latif,F., Chen,J.Y., Duh,F.M., Wei,M.H.,
            Albanesi,J.P., Lee,C.C., Lerman,M.I. and Minna,J.D.
  TITLE     Human semaphorins A(V) and IV reside in the 3p21.3 small cell lung
            cancer deletion region and demonstrate distinct expression patterns
  JOURNAL   Proc Natl Acad Sci U S A 93 (9), 4120-4125 (1996)
   PUBMED   8633026
REFERENCE   9  (bases 1 to 3285)
  AUTHORS   Wei,M.H., Latif,F., Bader,S., Kashuba,V., Chen,J.Y., Duh,F.M.,
            Sekido,Y., Lee,C.C., Geil,L., Kuzmin,I., Zabarovsky,E., Klein,G.,
            Zbar,B., Minna,J.D. and Lerman,M.I.
  TITLE     Construction of a 600-kilobase cosmid clone contig and generation
            of a transcriptional map surrounding the lung cancer tumor
            suppressor gene (TSG) locus on human chromosome 3p21.3: progress
            toward the isolation of a lung cancer TSG
  JOURNAL   Cancer Res 56 (7), 1487-1492 (1996)
   PUBMED   8603390
REFERENCE   10 (bases 1 to 3285)
  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     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from HY146744.1, BC013975.2,
            BC009113.1, AI309508.1 and U90094.1.
            
            On Aug 14, 2020 this sequence version replaced NM_001005914.2.
            
            Summary: The protein encoded by this gene belongs to the class-3
            semaphorin/collapsin family, whose members function in growth cone
            guidance during neuronal development. This family member inhibits
            axonal extension and has been shown to act as a tumor suppressor by
            inducing apoptosis. Alternative splicing of this gene results in
            multiple transcript variants. [provided by RefSeq, Feb 2014].
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice site in the central coding region, compared to variant 1,
            resulting in an isoform (2) that is 1 aa shorter than isoform 1.
            The 5' terminal exon of this variant is inferred based on tiled
            partial transcript 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 :: SRR1803611.19637.1,
                                           SRR11853565.20433.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1966682, SAMEA1968189
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-126               HY146744.1         95-220
            127-2881            BC013975.2         1-2755
            2882-2907           BC009113.1         2683-2708
            2908-2910           AI309508.1         247-249
            2911-3285           U90094.1           11975-12349
FEATURES             Location/Qualifiers
     source          1..3285
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3p21.31"
     gene            1..3285
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="semaphorin 3B"
                     /db_xref="GeneID:7869"
                     /db_xref="HGNC:HGNC:10724"
                     /db_xref="MIM:601281"
     exon            1..118
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            119..307
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     CDS             199..2445
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="isoform 2 precursor is encoded by transcript
                     variant 2; semaphorin A; sema A(V); semaphorin-V; sema
                     domain, immunoglobulin domain (Ig), short basic domain,
                     secreted, (semaphorin) 3B"
                     /codon_start=1
                     /product="semaphorin-3B isoform 2 precursor"
                     /protein_id="NP_001005914.1"
                     /db_xref="CCDS:CCDS77744.1"
                     /db_xref="GeneID:7869"
                     /db_xref="HGNC:HGNC:10724"
                     /db_xref="MIM:601281"
                     /translation="MGRAGAAAVIPGLALLWAVGLGSAAPSPPRLRLSFQELQAWHGL
                     QTFSLERTCCYQALLVDEERGRLFVGAENHVASLNLDNISKRAKKLAWPAPVEWREEC
                     NWAGKDIGTECMNFVKLLHAYNRTHLLACGTGAFHPTCAFVEVGHRAEEPVLRLDPGR
                     IEDGKGKSPYDPRHRAASVLVGEELYSGVAADLMGRDFTIFRSLGQRPSLRTEPHDSR
                     WLNEPKFVKVFWIPESENPDDDKIYFFFRETAVEAAPALGRLSVSRVGQICRNDVGGQ
                     RSLVNKWTTFLKARLVCSVPGVEGDTHFDQLQDVFLLSSRDHRTPLLYAVFSTSSIFQ
                     GSAVCVYSMNDVRRAFLGPFAHKEGPMHQWVSYQGRVPYPRPGMCPSKTFGTFSSTKD
                     FPDDVIQFARNHPLMYNSVLPTGGRPLFLQVGANYTFTQIAADRVAAADGHYDVLFIG
                     TDVGTVLKVISVPKGSRPSAEGLLLEELHVFEDSAAVTSMQISSKRHQLYVASRSAVA
                     QIALHRCAAHGRVCTECCLARDPYCAWDGVACTRFQPSAKRRFRRQDVRNGDPSTLCS
                     GDSSRPALLEHKVFGVEGSSAFLECEPRSLQARVEWTFQRAGVTAHTQVLAEERTERT
                     ARGLLLRRLRRRDSGVYLCAAVEQGFTQPLRRLSLHVLSATQAERLARAEEAAPAAPP
                     GPKLWYRDFLQLVEPGGGGSANSLRMCRPQPALQSLPLESRRKGRNRRTHAPEPRAER
                     GPRSATHW"
     exon            308..465
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            466..528
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            529..648
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            649..742
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            743..862
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            863..1008
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1009..1120
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1121..1190
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1191..1332
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1333..1552
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1553..1644
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1645..1686
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1687..1844
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1845..1900
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1901..2040
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            2041..3285
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2860..2865
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="hexamer: AATAAA"
     polyA_site      2904
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="major polyA site"
     regulatory      2995..3000
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="hexamer: ATTAAA"
     polyA_site      3017
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
ORIGIN      
        1 ggccccaggg tgggaagggg ccagagtgga gagatgctgc tgcggaagtc ctcggtggag
       61 tgtgagaagg cagccagtgt tggcctggaa gacctctaga acctgagaag aggcagcgat
      121 cctggggcag agtccagggc agctcaaggc tcctccacac acacacccgc tgaaccctga
      181 gcaccctgag ctgctgagat ggggcgggcc ggggctgccg ccgtgatccc gggcctggcc
      241 ctgctctggg cagtggggct ggggagtgcc gcccccagcc ccccacgcct tcggctctcc
      301 ttccaagagc tccaggcctg gcatggtctc cagactttca gcctggagcg aacctgctgc
      361 taccaggcct tgctggtgga tgaggagcgt ggacgcctgt ttgtgggtgc cgagaaccat
      421 gtggcctccc tcaacctgga caacatcagc aagcgggcca agaagctggc ctggccggcc
      481 cctgtggaat ggcgagagga gtgcaactgg gcagggaagg acattggtac tgagtgcatg
      541 aacttcgtga agttgctgca tgcctacaac cgcacccatt tgctggcctg tggcacggga
      601 gccttccacc caacctgtgc ctttgtggaa gtgggccacc gggcagagga gcccgtcctc
      661 cggctggacc caggaaggat agaggatggc aaggggaaga gtccttatga ccccaggcat
      721 cgggctgcct ccgtgctggt gggggaggag ctatactcag gggtggcagc agacctcatg
      781 ggacgagact ttaccatctt tcgcagccta gggcaacgtc caagtctccg aacagagcca
      841 cacgactccc gctggctcaa tgagcccaag tttgtcaagg tattttggat cccggagagc
      901 gagaacccag acgacgacaa aatctacttc ttctttcgtg agacggcggt agaggcggcg
      961 ccggcactgg gacgcctgtc cgtgtcccgc gttggccaga tctgccggaa cgacgtgggc
     1021 ggccagcgca gcctggtcaa caagtggacg acgttcctga aggcgcggct ggtgtgctcg
     1081 gtgcccggcg tcgagggcga cacccacttc gatcagctcc aggatgtgtt tctgttgtcc
     1141 tcgcgggacc accggacccc gctgctctat gccgtcttct ccacgtccag catcttccag
     1201 ggctctgcgg tgtgcgtgta cagcatgaac gacgtgcgcc gggccttctt gggacccttt
     1261 gcacacaagg aggggcccat gcaccagtgg gtgtcatacc agggtcgcgt cccctacccg
     1321 cggccaggca tgtgccccag caagaccttt ggcaccttca gttccaccaa ggacttccca
     1381 gacgatgtca tccagtttgc gcggaaccac cccctcatgt acaactctgt cctgcccact
     1441 ggggggcgcc ctcttttcct acaagttgga gccaattaca ccttcactca aattgccgcg
     1501 gaccgggttg cagccgctga cggacactat gacgtcctct tcattggcac agacgttggc
     1561 acggtgctga aggtgatctc ggtccccaag ggcagtaggc ccagcgcaga ggggctgctc
     1621 ctggaggagc tgcacgtgtt tgaggactcg gccgctgtca ccagcatgca aatttcttcc
     1681 aagaggcacc agctgtacgt agcctcgcgg agcgcggtgg cccagatcgc gttgcaccgc
     1741 tgcgctgccc acggccgcgt ctgcaccgaa tgctgtctgg cgcgtgaccc ctactgcgcc
     1801 tgggacgggg tcgcgtgcac gcgcttccag cccagtgcca agaggcggtt ccggcggcaa
     1861 gacgtaagga atggcgaccc cagcacgttg tgctccggag actcgtctcg tcccgcgctg
     1921 ctggaacaca aggtgttcgg cgtggagggc agcagcgcct ttctggagtg tgagccccgc
     1981 tcgctgcagg cgcgcgtgga gtggactttc cagcgcgcag gggtgacagc ccacacccag
     2041 gtgctggcag aggagcgcac cgagcgcacc gcccggggac tactgctgcg caggctgcgg
     2101 cgccgggact cgggcgtgta cttgtgcgcc gccgtcgagc agggctttac gcaaccgctg
     2161 cgtcgcctgt cgctgcacgt gttgagtgct acgcaggccg aacgactggc gcgggccgag
     2221 gaggctgcgc ccgccgcgcc gccgggcccc aaactctggt accgggactt tctgcagctg
     2281 gtggagccgg gcggaggtgg cagcgcgaac tccctgcgca tgtgccgccc gcagcctgcg
     2341 ctgcagtcac tgcccctgga gtcgcggaga aagggccgta accggaggac ccacgcccct
     2401 gagcctcgcg ctgagcgggg gccgcgcagc gcaacgcact ggtgaccaga ctgtccccac
     2461 gccgggaacc aagcaggaga cgacaggcga gagaggagcc agacagaccc tgaaaagaag
     2521 gacgggttgg ggccgggcac attgggggtc accggccgat ggagacacca accgacaggc
     2581 cctggctgag ggcagctgcg cgggcttatt tattaacagg ataacccttg aatgtagcag
     2641 ccccgggagg gcggcacagg tcgggcgcag gattcagccg gagggaaggg acggggaagc
     2701 cgagctccag agcaacgacc agggccgagg aggtgcctgg agtgcccacc ctgggagaca
     2761 gaccccacct ccttgggtag tgagcagtga gcagaaagct gtgaacaggc tgggctgctg
     2821 gaggtggggc gaggcaggcc gactgtacta aagtaacgca ataaacgcat tatcagccaa
     2881 agctggaatg gccccagcag aaaaccccag tcctcggcct tgctatgtgg tcttgggcac
     2941 cttactagcg gtgtcagggc ccgagtttct cctgtccaag gttgcctggt gaggattaaa
     3001 ggtggttccg gccaggcgcg gtggctcacg cctgtaatcc caacactttc ggaggcccag
     3061 gcggacggat cacgaggtca ggagatggaa accatcccgg ctaacacggt gaaaccccgt
     3121 ctgtactaaa aatacaaaaa attagtcggg cgtggtggcg ggcgcctgta atcctagcta
     3181 ctcaggaggc tgaggcagga gaattgcttg aacctgggag gtggaggttg caatgagcct
     3241 agatctcgcc gctgcactcc agcctgggcg acagagcgag actcc
//
