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Previous release (v1)
2025-04-17 20:19:26, GGRNA.v2 : RefSeq release 229 (Mar, 2025)
LOCUS NM_001410801 4765 bp mRNA linear PRI 02-APR-2024
DEFINITION Homo sapiens semaphorin 5B (SEMA5B), transcript variant 6, mRNA.
ACCESSION NM_001410801 XM_047448350
VERSION NM_001410801.1
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 4765)
AUTHORS Maki-Nevala,S., Sarhadi,V.K., Knuuttila,A., Scheinin,I.,
Ellonen,P., Lagstrom,S., Ronty,M., Kettunen,E.,
Husgafvel-Pursiainen,K., Wolff,H. and Knuutila,S.
TITLE Driver Gene and Novel Mutations in Asbestos-Exposed Lung
Adenocarcinoma and Malignant Mesothelioma Detected by Exome
Sequencing
JOURNAL Lung 194 (1), 125-135 (2016)
PUBMED 26463840
REMARK GeneRIF: SEMA5B could possibly serve as a candidate gene for
alterations associated with asbestos exposure.
REFERENCE 2 (bases 1 to 4765)
AUTHORS Wu,C., Hu,Z., He,Z., Jia,W., Wang,F., Zhou,Y., Liu,Z., Zhan,Q.,
Liu,Y., Yu,D., Zhai,K., Chang,J., Qiao,Y., Jin,G., Liu,Z., Shen,Y.,
Guo,C., Fu,J., Miao,X., Tan,W., Shen,H., Ke,Y., Zeng,Y., Wu,T. and
Lin,D.
TITLE Genome-wide association study identifies three new susceptibility
loci for esophageal squamous-cell carcinoma in Chinese populations
JOURNAL Nat Genet 43 (7), 679-684 (2011)
PUBMED 21642993
REMARK Publication Status: Online-Only
REFERENCE 3 (bases 1 to 4765)
AUTHORS Bailey,S.D., Xie,C., Do,R., Montpetit,A., Diaz,R., Mohan,V.,
Keavney,B., Yusuf,S., Gerstein,H.C., Engert,J.C. and Anand,S.
CONSRTM DREAM investigators
TITLE Variation at the NFATC2 locus increases the risk of
thiazolidinedione-induced edema in the Diabetes REduction
Assessment with ramipril and rosiglitazone Medication (DREAM) study
JOURNAL Diabetes Care 33 (10), 2250-2253 (2010)
PUBMED 20628086
REMARK GeneRIF: Observational study of gene-disease association,
gene-environment interaction, and pharmacogenomic / toxicogenomic.
(HuGE Navigator)
REFERENCE 4 (bases 1 to 4765)
AUTHORS Talmud,P.J., Drenos,F., Shah,S., Shah,T., Palmen,J., Verzilli,C.,
Gaunt,T.R., Pallas,J., Lovering,R., Li,K., Casas,J.P., Sofat,R.,
Kumari,M., Rodriguez,S., Johnson,T., Newhouse,S.J., Dominiczak,A.,
Samani,N.J., Caulfield,M., Sever,P., Stanton,A., Shields,D.C.,
Padmanabhan,S., Melander,O., Hastie,C., Delles,C., Ebrahim,S.,
Marmot,M.G., Smith,G.D., Lawlor,D.A., Munroe,P.B., Day,I.N.,
Kivimaki,M., Whittaker,J., Humphries,S.E. and Hingorani,A.D.
CONSRTM ASCOT investigators; NORDIL investigators; BRIGHT Consortium
TITLE Gene-centric association signals for lipids and apolipoproteins
identified via the HumanCVD BeadChip
JOURNAL Am J Hum Genet 85 (5), 628-642 (2009)
PUBMED 19913121
REMARK GeneRIF: Observational study of gene-disease association. (HuGE
Navigator)
REFERENCE 5 (bases 1 to 4765)
AUTHORS O'Connor,T.P., Cockburn,K., Wang,W., Tapia,L., Currie,E. and
Bamji,S.X.
TITLE Semaphorin 5B mediates synapse elimination in hippocampal neurons
JOURNAL Neural Dev 4, 18 (2009)
PUBMED 19463192
REMARK GeneRIF: Sema5B regulates the development and maintenance of
synapse size and number in hippocampal neurons.
Publication Status: Online-Only
REFERENCE 6 (bases 1 to 4765)
AUTHORS Clark,H.F., Gurney,A.L., Abaya,E., Baker,K., Baldwin,D., Brush,J.,
Chen,J., Chow,B., Chui,C., Crowley,C., Currell,B., Deuel,B.,
Dowd,P., Eaton,D., Foster,J., Grimaldi,C., Gu,Q., Hass,P.E.,
Heldens,S., Huang,A., Kim,H.S., Klimowski,L., Jin,Y., Johnson,S.,
Lee,J., Lewis,L., Liao,D., Mark,M., Robbie,E., Sanchez,C.,
Schoenfeld,J., Seshagiri,S., Simmons,L., Singh,J., Smith,V.,
Stinson,J., Vagts,A., Vandlen,R., Watanabe,C., Wieand,D., Woods,K.,
Xie,M.H., Yansura,D., Yi,S., Yu,G., Yuan,J., Zhang,M., Zhang,Z.,
Goddard,A., Wood,W.I., Godowski,P. and Gray,A.
TITLE The secreted protein discovery initiative (SPDI), a large-scale
effort to identify novel human secreted and transmembrane proteins:
a bioinformatics assessment
JOURNAL Genome Res 13 (10), 2265-2270 (2003)
PUBMED 12975309
REMARK Erratum:[Genome Res. 2003 Dec;13(12):2759]
REFERENCE 7 (bases 1 to 4765)
AUTHORS Adams,R.H., Betz,H. and Puschel,A.W.
TITLE A novel class of murine semaphorins with homology to thrombospondin
is differentially expressed during early embryogenesis
JOURNAL Mech Dev 57 (1), 33-45 (1996)
PUBMED 8817451
COMMENT VALIDATED REFSEQ: This record has undergone validation or
preliminary review. The reference sequence was derived from
AC083797.16 and AC078794.13.
On Aug 16, 2022 this sequence version replaced XM_047448350.1.
Summary: This gene encodes a member of the semaphorin protein
family which regulates axon growth during development of the
nervous system. The encoded protein has a characteristic Sema
domain near the N-terminus, through which semaphorins bind to
plexin, and five thrombospondin type 1 repeats in the C-terminal
region of the protein. The protein product may be cleaved and exist
as a secreted molecule (PMID: 19463192). Multiple transcript
variants encoding different isoforms have been found for this gene.
[provided by RefSeq, Jan 2012].
##Evidence-Data-START##
Transcript exon combination :: SRR14038191.1392971.1,
SRR14038194.3452536.1 [ECO:0000332]
RNAseq introns :: mixed sample support SAMEA1965299,
SAMEA1966682 [ECO:0006172]
##Evidence-Data-END##
COMPLETENESS: full length.
PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP
1-300 AC083797.16 147427-147726
301-504 AC078794.13 3032-3235
505-604 AC078794.13 8206-8305
605-650 AC078794.13 12271-12316
651-713 AC078794.13 22683-22745
714-884 AC078794.13 23054-23224
885-1098 AC078794.13 23738-23951
1099-1384 AC078794.13 25064-25349
1385-1520 AC078794.13 27989-28124
1521-1728 AC078794.13 29294-29501
1729-1936 AC078794.13 29619-29826
1937-2054 AC078794.13 35851-35968
2055-2236 AC078794.13 36120-36301
2237-2380 AC078794.13 37740-37883
2381-2528 AC078794.13 38060-38207
2529-2754 AC078794.13 38317-38542
2755-2973 AC078794.13 38680-38898
2974-3144 AC078794.13 39399-39569
3145-3294 AC078794.13 39672-39821
3295-3339 AC078794.13 40206-40250
3340-3545 AC078794.13 40696-40901
3546-4765 AC078794.13 41440-42659
FEATURES Location/Qualifiers
source 1..4765
/organism="Homo sapiens"
/mol_type="mRNA"
/db_xref="taxon:9606"
/chromosome="3"
/map="3q21.1"
gene 1..4765
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="semaphorin 5B"
/db_xref="GeneID:54437"
/db_xref="HGNC:HGNC:10737"
/db_xref="MIM:609298"
exon 1..300
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 301..504
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
CDS 351..3704
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="isoform 4 precursor is encoded by transcript
variant 6; sema domain, seven thrombospondin repeats (type
1 and type 1-like), transmembrane domain (TM) and short
cytoplasmic domain, (semaphorin) 5B"
/codon_start=1
/product="semaphorin-5B isoform 4 precursor"
/protein_id="NP_001397730.1"
/db_xref="CCDS:CCDS93351.1"
/db_xref="GeneID:54437"
/db_xref="HGNC:HGNC:10737"
/db_xref="MIM:609298"
/translation="
MVLAGPLAVSLLLPSLTLLVSHLSSSQDVSSEPSSEQQLCALSKHPTVAFEDLQPWVSNFTYPGARDFSQLALDPSGNQLIVGARNYLFRLSLANVSLLQATEWASSEDTRRSCQSKGKTEWCEREISSIAPGELCCLLLSFLPQEECQNYVRVLIVAGRKVFMCGTNAFSPMCTSRQVGNLSRTIEKINGVARCPYDPRHNSTAVISSQGELYAATVIDFSGRDPAIYRSLGSGPPLRTAQYNSKWLNEPNFVAAYDIGLFAYFFLRENAVEHDCGRTVYSRVARVCKNDVGGRFLLEDTWTTFMKARLNCSRPGEVPFYYNELQSAFHLPEQDLIYGVFTTNVNSIAASAVCAFNLSAISQAFNGPFRYQENPRAAWLPIANPIPNFQCGTLPETGPNENLTERSLQDAQRLFLMSEAVQPVTPEPCVTQDSVRFSHLVVDLVQAKDTLYHVLYIGTESGTILKALSTASRSLHGCYLEELHVLPPGRREPLRSLRILHSARALFVGLRDGVLRVPLERCAAYRSQGACLGARDPYCGWDGKQQRCSTLEDSSNMSLWTQNITACPVRNVTRDGGFGPWSPWQPCEHLDGDNSGSCLCRARSCDSPRPRCGGLDCLGPAIHIANCSRNGAWTPWSSWALCSTSCGIGFQVRQRSCSNPAPRHGGRICVGKSREERFCNENTPCPVPIFWASWGSWSKCSSNCGGGMQSRRRACENGNSCLGCGVEFKTCNPEGCPEVRRNTPWTPWLPVNVTQGGARQEQRFRFTCRAPLADPHGLQFGRRRTETRTCPADGSGSCDTDALVEVLLRSGSTSPHTVSGGWAAWGPWSSCSRDCELGFRVRKRTCTNPEPRNGGLPCVGDAAEYQDCNPQACPVRGAWSCWTSWSPCSASCGGGHYQRTRSCTSPAPSPGEDICLGLHTEEALCATQACPEGWSPWSEWSKCTDDGAQSRSRHCEELLPGSSACAGNSSQSRPCPYSEIPVILPASSMEEATDCAGFNLIHLVATGISCFLGSGLLTLAVYLSCQHCQRQSQESTLVHPATPNHLHYKGGGTPKNEKYTPMEFKTLNKNNLIPDDRANFYPLQQTNVYTTTYYPSPLNKHSFRPEASPGQRCFPNS"
sig_peptide 351..428
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="COORDINATES: ab initio prediction:SignalP:6.0"
misc_feature 528..1910
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="The Sema domain, a protein interacting module, of
semaphorins and plexins; Region: Sema; cl15693"
/db_xref="CDD:472829"
misc_feature 1911..2054
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="Plexin repeat; Region: PSI; pfam01437"
/db_xref="CDD:396154"
misc_feature 2247..2408
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="Thrombospondin type 1 repeats; Region: TSP1;
smart00209"
/db_xref="CDD:214559"
misc_feature 2421..2561
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="Thrombospondin type 1 repeats; Region: TSP1;
smart00209"
/db_xref="CDD:214559"
misc_feature 2814..2972
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="Thrombospondin type 1 repeats; Region: TSP1;
smart00209"
/db_xref="CDD:214559"
misc_feature 2985..3143
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="Thrombospondin type 1 repeats; Region: TSP1;
smart00209"
/db_xref="CDD:214559"
misc_feature 3153..3278
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="Thrombospondin type 1 domain; Region: TSP_1;
pfam00090"
/db_xref="CDD:459668"
exon 505..604
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 605..650
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 651..713
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 714..884
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 885..1098
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 1099..1384
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 1385..1520
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 1521..1728
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 1729..1936
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 1937..2054
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 2055..2236
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 2237..2380
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 2381..2528
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 2529..2754
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 2755..2973
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 2974..3144
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 3145..3294
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 3295..3339
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 3340..3545
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
exon 3546..4765
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/inference="alignment:Splign:2.1.0"
regulatory 4632..4637
/regulatory_class="polyA_signal_sequence"
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="hexamer: ATTAAA"
polyA_site 4651
/gene="SEMA5B"
/gene_synonym="SEMAG; SemG"
/note="major polyA site"
ORIGIN
ctccctgctctctccgagcgccgggtcgggagctagttggagcgcgggggttggtgccagagcccagctccgccgagccgggcgggtcggcagcgcatccagcggctgctgggagcccgagcgcagcgggcgcgggcccgggtggggactgcaccggagcgctgagagctggaggccgttcctgcgcggccgccccattcccagaccggccgccagcccatctggttagctcccgccgctccgcgccgcccgggagtcgggagccgcggggaaccgggcacctgcacccgcctctgggaggtcttctcccctgtctgcctcccggagctaggactgcagaggggcctatcatggtgcttgcaggccccctggctgtctcgctgttgctgcccagcctcacactgctggtgtcccacctctccagctcccaggatgtctccagtgagcccagcagtgagcagcagctgtgcgcccttagcaagcaccccaccgtggcctttgaagacctgcagccgtgggtctctaacttcacctaccctggagcccgggatttctcccagctggctttggacccctccgggaaccagctcatcgtgggagccaggaactacctcttcagactcagccttgccaatgtctctcttcttcaggccacagagtgggcctccagtgaggacacgcgccgctcctgccaaagcaaagggaagactgagtggtgtgagcgtgagatatccagcatcgcacctggagagctgtgctgtctgctcctttccttcctgcctcaggaggagtgtcagaactacgtgcgagtcctgatcgtcgccggccggaaggtgttcatgtgtggaaccaatgccttttcccccatgtgcaccagcagacaggtggggaacctcagccggactattgagaagatcaatggtgtggcccgctgcccctatgacccacgccacaactccacagctgtcatctcctcccagggggagctctatgcagccacggtcatcgacttctcaggtcgggaccctgccatctaccgcagcctgggcagtgggccaccgcttcgcactgcccaatataactccaagtggcttaatgagccaaacttcgtggcagcctatgatattgggctgtttgcatacttcttcctgcgggagaacgcagtggagcacgactgtggacgcaccgtgtactctcgcgtggcccgcgtgtgcaagaatgacgtggggggccgattcctgctggaggacacatggaccacattcatgaaggcccggctcaactgctcccgcccgggcgaggtccccttctactataacgagctgcagagtgccttccacttgccggagcaggacctcatctatggagttttcacaaccaacgtaaacagcatcgcggcttctgctgtctgcgccttcaacctcagtgctatctcccaggctttcaatggcccatttcgctaccaggagaaccccagggctgcctggctccccatagccaaccccatccccaatttccagtgtggcaccctgcctgagaccggtcccaacgagaacctgacggagcgcagcctgcaggacgcgcagcgcctcttcctgatgagcgaggccgtgcagccggtgacacccgagccctgtgtcacccaggacagcgtgcgcttctcacacctcgtggtggacctggtgcaggctaaagacacgctctaccatgtactctacattggcaccgagtcgggcaccatcctgaaggcgctgtccacggcgagccgcagcctccacggctgctacctggaggagctgcacgtgctgccccccgggcgccgcgagcccctgcgcagcctgcgcatcctgcacagcgcccgcgcgctcttcgtggggctgagagacggcgtcctgcgggtcccactggagaggtgcgccgcctaccgcagccagggggcatgcctgggggcccgggacccgtactgtggctgggacgggaagcagcaacgttgcagcacactcgaggacagctccaacatgagcctctggacccagaacatcaccgcctgtcctgtgcggaatgtgacacgggatgggggcttcggcccatggtcaccatggcaaccatgtgagcacttggatggggacaactcaggctcttgcctgtgtcgagctcgatcctgtgattcccctcgaccccgctgtgggggccttgactgcctggggccagccatccacatcgccaactgctccaggaatggggcgtggaccccgtggtcatcgtgggcgctgtgcagcacgtcctgtggcatcggcttccaggtccgccagcgaagttgcagcaaccctgctccccgccacgggggccgcatctgcgtgggcaagagccgggaggaacggttctgtaatgagaacacgccttgcccggtgcccatcttctgggcttcctggggctcctggagcaagtgcagcagcaactgtggagggggcatgcagtcgcggcgtcgggcctgcgagaacggcaactcctgcctgggctgcggcgtggagttcaagacgtgcaaccccgagggctgccccgaagtgcggcgcaacaccccctggacgccgtggctgcccgtgaacgtgacgcagggcggggcacggcaggagcagcggttccgcttcacctgccgcgcgccccttgcagacccgcacggcctgcagttcggcaggagaaggaccgagacgaggacctgtcccgcggacggctccggctcctgcgacaccgacgccctggtggaggtcctcctgcgcagcgggagcacctccccgcacacggtgagcgggggctgggccgcctggggcccgtggtcgtcctgctcccgggactgcgagctgggcttccgcgtccgcaagagaacgtgcactaacccggagccccgcaacgggggcctgccctgcgtgggcgatgctgccgagtaccaggactgcaacccccaggcttgcccagttcggggtgcttggtcctgctggacctcatggtctccatgctcagcttcctgtggtgggggtcactatcaacgcacccgttcctgcaccagccccgcaccctccccaggtgaggacatctgtctcgggctgcacacggaggaggcactatgtgccacacaggcctgcccagaaggctggtcgccctggtctgagtggagtaagtgcactgacgacggagcccagagccgaagccggcactgtgaggagctcctcccagggtccagcgcctgtgctggaaacagcagccagagccgcccctgcccctacagcgagattcccgtcatcctgccagcctccagcatggaggaggccaccgactgtgcagggttcaatctcatccacttggtggccacgggcatctcctgcttcttgggctctgggctcctgaccctagcagtgtacctgtcttgccagcactgccagcgtcagtcccaggagtccacactggtccatcctgccacccccaaccatttgcactacaagggcggaggcaccccgaagaatgaaaagtacacacccatggaattcaagaccctgaacaagaataacttgatccctgatgacagagccaacttctacccattgcagcagaccaatgtgtacacgactacttactacccaagccccctgaacaaacacagcttccggcccgaggcctcacctggacaacggtgcttccccaacagctgataccgccgtcctggggacttgggcttcttgccttcataaggcacagagcagatggagatgggacagtggagccagtttggttttctccctctgcactaggccaagaacttgctgccttgcctgtggggggtcccatccggcttcagagagctctggctggcattgaccatgggggaaagggctggtttcaggctgacatatggccgcaggtccagttcagcccaggtctctcatggttatcttccaacccactgtcacgctgacactatgctgccatgcctgggctgtggacctactgggcatttgaggaattggagaatggagatggcaagagggcaggcttttaagtttgggttggagacaacttcctgtggcccccacaagctgagtctggccttctccagctggccccaaaaaaggcctttgctacatcctgattatctctgaaagtaatcaatcaagtggctccagtagctctggattttctgccagggctgggccattgtggtgctgccccagtatgacatgggaccaaggccagcgcaggttatccacctctgcctggaagtctatactctacccagggcatccctctggtcagaggcagtgagtactgggaactggaggctgacctgtgcttagaagtcctttaatctgggctggtacaggcctcagccttgccctcaatgcacgaaaggtggcccaggagagaggatcaatgccataggaggcagaagtctggcctctgtgcctctatggagactatcttccagttgctgctcaacagagttgttggctgagacctgcttgggagtctctgctggcccttcatctgttcaggaacacacacacacacacactcacacacgcacacacaatcacaatttgctacagcaacaaaaaagacattgggctgtggcattattaattaaagatgatatccagtctccaaatgtctctgtgcatctgtgcgtgggctcctcttgcatagtctaggcaatctgagcaatgcaccagggtggcagatggtctctcaaggcgggggaaatgccccaagtagc
//
by
@meso_cacase at
DBCLS
This page is licensed under a
Creative Commons Attribution 4.0 International License (CC BY 4.0).
If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
[Full Text]