LOCUS       NM_001290060            3184 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens semaphorin 3B (SEMA3B), transcript variant 3, mRNA.
ACCESSION   NM_001290060
VERSION     NM_001290060.2
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 3184)
  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 3184)
  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 3184)
  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 3184)
  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 3184)
  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 3184)
  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 3184)
  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 3184)
  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 3184)
  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 3184)
  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 U28369.1, BC009113.1,
            AI309508.1 and U90094.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On May 17, 2019 this sequence version replaced NM_001290060.1.
            
            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 (3) differs in the 5' UTR compared
            to variant 1. Both variants 1 and 3 encode 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 :: U28369.1, SRR1803611.261992.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1966682, SAMEA1968189
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000616701.5/ ENSP00000484146.1
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2778              U28369.1           142-2919
            2779-2806           BC009113.1         2681-2708
            2807-2809           AI309508.1         247-249
            2810-3184           U90094.1           11975-12349
FEATURES             Location/Qualifiers
     source          1..3184
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3p21.31"
     gene            1..3184
                     /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..203
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     CDS             95..2344
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 3; 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 1 precursor"
                     /protein_id="NP_001276989.1"
                     /db_xref="CCDS:CCDS74941.1"
                     /db_xref="GeneID:7869"
                     /db_xref="HGNC:HGNC:10724"
                     /db_xref="MIM:601281"
                     /translation="MGRAGAAAVIPGLALLWAVGLGSAAPSPPRLRLSFQELQAWHGL
                     QTFSLERTCCYQALLVDEERGRLFVGAENHVASLNLDNISKRAKKLAWPAPVEWREEC
                     NWAGKDIGTECMNFVKLLHAYNRTHLLACGTGAFHPTCAFVEVGHRAEEPVLRLDPGR
                     IEDGKGKSPYDPRHRAASVLVGEELYSGVAADLMGRDFTIFRSLGQRPSLRTEPHDSR
                     WLNEPKFVKVFWIPESENPDDDKIYFFFRETAVEAAPALGRLSVSRVGQICRNDVGGQ
                     RSLVNKWTTFLKARLVCSVPGVEGDTHFDQLQDVFLLSSRDHRTPLLYAVFSTSSSIF
                     QGSAVCVYSMNDVRRAFLGPFAHKEGPMHQWVSYQGRVPYPRPGMCPSKTFGTFSSTK
                     DFPDDVIQFARNHPLMYNSVLPTGGRPLFLQVGANYTFTQIAADRVAAADGHYDVLFI
                     GTDVGTVLKVISVPKGSRPSAEGLLLEELHVFEDSAAVTSMQISSKRHQLYVASRSAV
                     AQIALHRCAAHGRVCTECCLARDPYCAWDGVACTRFQPSAKRRFRRQDVRNGDPSTLC
                     SGDSSRPALLEHKVFGVEGSSAFLECEPRSLQARVEWTFQRAGVTAHTQVLAEERTER
                     TARGLLLRRLRRRDSGVYLCAAVEQGFTQPLRRLSLHVLSATQAERLARAEEAAPAAP
                     PGPKLWYRDFLQLVEPGGGGSANSLRMCRPQPALQSLPLESRRKGRNRRTHAPEPRAE
                     RGPRSATHW"
     exon            204..361
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            362..424
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            425..544
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            545..638
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            639..758
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            759..904
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            905..1016
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1017..1086
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1087..1231
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1232..1451
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1452..1543
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1544..1585
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1586..1743
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1744..1799
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1800..1939
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     exon            1940..3184
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2759..2764
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="hexamer: AATAAA"
     polyA_site      2803
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="major polyA site"
     regulatory      2894..2899
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
                     /note="hexamer: ATTAAA"
     polyA_site      2916
                     /gene="SEMA3B"
                     /gene_synonym="LUCA-1; SemA; SEMA5; SEMAA; semaV"
ORIGIN      
        1 gactcctctt ccagatcctg gggcagagtc cagggcagct caaggctcct ccacacacac
       61 acccgctgaa ccctgagcac cctgagctgc tgagatgggg cgggccgggg ctgccgccgt
      121 gatcccgggc ctggccctgc tctgggcagt ggggctgggg agtgccgccc ccagcccccc
      181 acgccttcgg ctctccttcc aagagctcca ggcctggcat ggtctccaga ctttcagcct
      241 ggagcgaacc tgctgctacc aggccttgct ggtggatgag gagcgtggac gcctgtttgt
      301 gggtgccgag aaccatgtgg cctccctcaa cctggacaac atcagcaagc gggccaagaa
      361 gctggcctgg ccggcccctg tggaatggcg agaggagtgc aactgggcag ggaaggacat
      421 tggtactgag tgcatgaact tcgtgaagtt gctgcatgcc tacaaccgca cccatttgct
      481 ggcctgtggc acgggagcct tccacccaac ctgtgccttt gtggaagtgg gccaccgggc
      541 agaggagccc gtcctccggc tggacccagg aaggatagag gatggcaagg ggaagagtcc
      601 ttatgacccc aggcatcggg ctgcctccgt gctggtgggg gaggagctat actcaggggt
      661 ggcagcagac ctcatgggac gagactttac catctttcgc agcctagggc aacgtccaag
      721 tctccgaaca gagccacacg actcccgctg gctcaatgag cccaagtttg tcaaggtatt
      781 ttggatcccg gagagcgaga acccagacga cgacaaaatc tacttcttct ttcgtgagac
      841 ggcggtagag gcggcgccgg cactgggacg cctgtccgtg tcccgcgttg gccagatctg
      901 ccggaacgac gtgggcggcc agcgcagcct ggtcaacaag tggacgacgt tcctgaaggc
      961 gcggctggtg tgctcggtgc ccggcgtcga gggcgacacc cacttcgatc agctccagga
     1021 tgtgtttctg ttgtcctcgc gggaccaccg gaccccgctg ctctatgccg tcttctccac
     1081 gtccagcagc atcttccagg gctctgcggt gtgcgtgtac agcatgaacg acgtgcgccg
     1141 ggccttcttg ggaccctttg cacacaagga ggggcccatg caccagtggg tgtcatacca
     1201 gggtcgcgtc ccctacccgc ggccaggcat gtgccccagc aagacctttg gcaccttcag
     1261 ttccaccaag gacttcccag acgatgtcat ccagtttgcg cggaaccacc ccctcatgta
     1321 caactctgtc ctgcccactg gggggcgccc tcttttccta caagttggag ccaattacac
     1381 cttcactcaa attgccgcgg accgggttgc agccgctgac ggacactatg acgtcctctt
     1441 cattggcaca gacgttggca cggtgctgaa ggtgatctcg gtccccaagg gcagtaggcc
     1501 cagcgcagag gggctgctcc tggaggagct gcacgtgttt gaggactcgg ccgctgtcac
     1561 cagcatgcaa atttcttcca agaggcacca gctgtacgta gcctcgcgga gcgcggtggc
     1621 ccagatcgcg ttgcaccgct gcgctgccca cggccgcgtc tgcaccgaat gctgtctggc
     1681 gcgtgacccc tactgcgcct gggacggggt cgcgtgcacg cgcttccagc ccagtgccaa
     1741 gaggcggttc cggcggcaag acgtaaggaa tggcgacccc agcacgttgt gctccggaga
     1801 ctcgtctcgt cccgcgctgc tggaacacaa ggtgttcggc gtggagggca gcagcgcctt
     1861 tctggagtgt gagccccgct cgctgcaggc gcgcgtggag tggactttcc agcgcgcagg
     1921 ggtgacagcc cacacccagg tgctggcaga ggagcgcacc gagcgcaccg cccggggact
     1981 actgctgcgc aggctgcggc gccgggactc gggcgtgtac ttgtgcgccg ccgtcgagca
     2041 gggctttacg caaccgctgc gtcgcctgtc gctgcacgtg ttgagtgcta cgcaggccga
     2101 acgactggcg cgggccgagg aggctgcgcc cgccgcgccg ccgggcccca aactctggta
     2161 ccgggacttt ctgcagctgg tggagccggg cggaggtggc agcgcgaact ccctgcgcat
     2221 gtgccgcccg cagcctgcgc tgcagtcact gcccctggag tcgcggagaa agggccgtaa
     2281 ccggaggacc cacgcccctg agcctcgcgc tgagcggggg ccgcgcagcg caacgcactg
     2341 gtgaccagac tgtccccacg ccgggaacca agcaggagac gacaggcgag agaggagcca
     2401 gacagaccct gaaaagaagg acgggttggg gccgggcaca ttgggggtca ccggccgatg
     2461 gagacaccaa ccgacaggcc ctggctgagg gcagctgcgc gggcttattt attaacagga
     2521 taacccttga atgtagcagc cccgggaggg cggcacaggt cgggcgcagg attcagccgg
     2581 agggaaggga cggggaagcc gagctccaga gcaacgacca gggccgagga ggtgcctgga
     2641 gtgcccaccc tgggagacag accccacctc cttgggtagt gagcagtgag cagaaagctg
     2701 tgaacaggct gggctgctgg aggtggggcg aggcaggccg actgtactaa agtaacgcaa
     2761 taaacgcatt atcagccaaa gctggaatgg ccccagcaga aaaccccagt cctcggcctt
     2821 gctatgtggt cttgggcacc ttactagcgg tgtcagggcc cgagtttctc ctgtccaagg
     2881 ttgcctggtg aggattaaag gtggttccgg ccaggcgcgg tggctcacgc ctgtaatccc
     2941 aacactttcg gaggcccagg cggacggatc acgaggtcag gagatggaaa ccatcccggc
     3001 taacacggtg aaaccccgtc tgtactaaaa atacaaaaaa ttagtcgggc gtggtggcgg
     3061 gcgcctgtaa tcctagctac tcaggaggct gaggcaggag aattgcttga acctgggagg
     3121 tggaggttgc aatgagccta gatctcgccg ctgcactcca gcctgggcga cagagcgaga
     3181 ctcc
//
