2024-04-29 09:25:34, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001163490 3125 bp mRNA linear ROD 11-NOV-2023 DEFINITION Mus musculus sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A (Sema4a), transcript variant 3, mRNA. ACCESSION NM_001163490 VERSION NM_001163490.1 KEYWORDS RefSeq. SOURCE Mus musculus (house mouse) ORGANISM Mus musculus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus. REFERENCE 1 (bases 1 to 3125) 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 EA, 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 REFERENCE 2 (bases 1 to 3125) AUTHORS Martins LF, Brambilla I, Motta A, de Pretis S, Bhat GP, Badaloni A, Malpighi C, Amin ND, Imai F, Almeida RD, Yoshida Y, Pfaff SL and Bonanomi D. TITLE Motor neurons use push-pull signals to direct vascular remodeling critical for their connectivity JOURNAL Neuron 110 (24), 4090-4107 (2022) PUBMED 36240771 REFERENCE 3 (bases 1 to 3125) AUTHORS Xu R, Hoss C, Swiercz JM, Brandt DT, Lutz V, Petersen N, Li R, Zhao D, Oleksy A, Creigh-Pulatmen T, Trokter M, Fedorova M, Atzberger A, Strandby RB, Olsen AA, Achiam MP, Matthews D, Huber M, Grone HJ, Offermanns S and Worzfeld T. TITLE A semaphorin-plexin-Rasal1 signaling pathway inhibits gastrin expression and protects against peptic ulcers JOURNAL Sci Transl Med 14 (654), eabf1922 (2022) PUBMED 35857828 REFERENCE 4 (bases 1 to 3125) AUTHORS Suga Y, Nagatomo I, Kinehara Y, Koyama S, Okuzaki D, Osa A, Naito Y, Takamatsu H, Nishide M, Nojima S, Ito D, Tsuda T, Nakatani T, Nakanishi Y, Futami Y, Koba T, Satoh S, Hosono Y, Miyake K, Fukushima K, Shiroyama T, Iwahori K, Hirata H, Takeda Y and Kumanogoh A. TITLE IL-33 Induces Sema4A Expression in Dendritic Cells and Exerts Antitumor Immunity JOURNAL J Immunol 207 (5), 1456-1467 (2021) PUBMED 34380650 REFERENCE 5 (bases 1 to 3125) AUTHORS Limoni G, Murthy S, Jabaudon D, Dayer A and Niquille M. TITLE PlexinA4-Semaphorin3A-mediated crosstalk between main cortical interneuron classes is required for superficial interneuron lamination JOURNAL Cell Rep 34 (4), 108644 (2021) PUBMED 33503438 REFERENCE 6 (bases 1 to 3125) AUTHORS Oster SF, Bodeker MO, He F and Sretavan DW. TITLE Invariant Sema5A inhibition serves an ensheathing function during optic nerve development JOURNAL Development 130 (4), 775-784 (2003) PUBMED 12506007 REFERENCE 7 (bases 1 to 3125) AUTHORS Dionne MS, Brunet LJ, Eimon PM and Harland RM. TITLE Noggin is required for correct guidance of dorsal root ganglion axons JOURNAL Dev Biol 251 (2), 283-293 (2002) PUBMED 12435358 REFERENCE 8 (bases 1 to 3125) 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 3125) AUTHORS Puschel AW, Adams RH and Betz H. TITLE The sensory innervation of the mouse spinal cord may be patterned by differential expression of and differential responsiveness to semaphorins JOURNAL Mol Cell Neurosci 7 (5), 419-431 (1996) PUBMED 8812066 REFERENCE 10 (bases 1 to 3125) AUTHORS Puschel AW, Adams RH 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 VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from BY265162.1, AK153164.1 and AK077976.1. Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All four variants encode the same protein. 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 :: SRR17784650.1327972.1, SRR6116558.160674.1 [ECO:0000332] RNAseq introns :: mixed sample support SAMN00849374, SAMN00849375 [ECO:0006172] ##Evidence-Data-END## COMPLETENESS: complete on the 3' end. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-241 BY265162.1 1-241 242-1709 AK153164.1 333-1800 1710-1997 AK077976.1 1790-2077 1998-2877 AK153164.1 2089-2968 2878-3125 AK077976.1 2958-3205 FEATURES Location/Qualifiers source 1..3125 /organism="Mus musculus" /mol_type="mRNA" /strain="C57BL/6" /db_xref="taxon:10090" /chromosome="3" /map="3 38.83 cM" gene 1..3125 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A" /db_xref="GeneID:20351" /db_xref="MGI:MGI:107560" exon 1..115 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" misc_feature 10..12 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="upstream in-frame stop codon" exon 116..283 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" CDS 145..2427 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="semaphorin-4A; sema B; semaphorin-B" /codon_start=1 /product="semaphorin-4A precursor" /protein_id="NP_001156962.1" /db_xref="CCDS:CCDS17475.1" /db_xref="GeneID:20351" /db_xref="MGI:MGI:107560" /translation="
MALPSLGQDSWSLLRVFFFQLFLLPSLPPASGTGGQGPMPRVKYHAGDGHRALSFFQQKGLRDFDTLLLSDDGNTLYVGAREAVLALNIQNPGIPRLKNMIPWPASERKKTECAFKKKSNETQCFNFIRVLVSYNATHLYACGTFAFSPACTFIELQDSLLLPILIDKVMDGKGQSPFDPVHKHTAVLVDGMLYSGTMNNFLGSEPILMRTLGSQPVLKTDIFLRWLHADASFVAAIPSTQVVYFFFEETASEFDFFEELYISRVAQVCKNDVGGEKLLQKKWTTFLKAQLLCAQPGQLPFNIIRHAVLLPADSPSVSRIYAVFTSQWQVGGTRSSAVCAFSLTDIERVFKGKYKELNKETSRWTTYRGSEVSPRPGSCSMGPSSDKALTFMKDHFLMDEHVVGTPLLVKSGVEYTRLAVESARGLDGSSHVVMYLGTSTGSLHKAVVPQDSSAYLVEEIQLSPDSEPVRNLQLAPAQGAVFAGFSGGIWRVPRANCSVYESCVDCVLARDPHCAWDPESRLCSLLSGSTKPWKQDMERGNPEWVCTRGPMARSPRRQSPPQLIKEVLTVPNSILELPCPHLSALASYHWSHGRAKISEASATVYNGSLLLLPQDGVGGLYQCVATENGYSYPVVSYWVDSQDQPLALDPELAGVPRERVQVPLTRVGGGASMAAQRSYWPHFLIVTVLLAIVLLGVLTLLLASPLGALRARGKVQGCGMLPPREKAPLSRDQHLQPSKDHRTSASDVDADNNHLGAEVA"
sig_peptide 145..240 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="COORDINATES: ab initio prediction:SignalP:4.0" mat_peptide 241..2424 /gene="Sema4a" /gene_synonym="Semab; SemB" /product="Semaphorin-4A. /id=PRO_0000032323" /note="propagated from UniProtKB/Swiss-Prot (Q62178.2)" misc_feature 307..1629 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693" /db_xref="CDD:449580" misc_feature 502..504 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="N-linked (GlcNAc...) asparagine. /evidence=ECO:0000255; propagated from UniProtKB/Swiss-Prot (Q62178.2); glycosylation site" misc_feature 547..549 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="N-linked (GlcNAc...) asparagine. /evidence=ECO:0000255; propagated from UniProtKB/Swiss-Prot (Q62178.2); glycosylation site" misc_feature 1630..1764 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="domain found in Plexins, Semaphorins and Integrins; Region: PSI; smart00423" /db_xref="CDD:214655" misc_feature 1630..1632 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="N-linked (GlcNAc...) asparagine. /evidence=ECO:0000255; propagated from UniProtKB/Swiss-Prot (Q62178.2); glycosylation site" misc_feature 1852..2055 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="Immunoglobulin domain; Region: Ig; cl11960" /db_xref="CDD:448366" misc_feature 1867..1881 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="Ig strand B [structural motif]; Region: Ig strand B" /db_xref="CDD:409353" misc_feature 1903..1917 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="Ig strand C [structural motif]; Region: Ig strand C" /db_xref="CDD:409353" misc_feature 1960..1974 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="Ig strand E [structural motif]; Region: Ig strand E" /db_xref="CDD:409353" misc_feature 1960..1962 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="N-linked (GlcNAc...) asparagine. /evidence=ECO:0000255; propagated from UniProtKB/Swiss-Prot (Q62178.2); glycosylation site" misc_feature 2002..2019 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="Ig strand F [structural motif]; Region: Ig strand F" /db_xref="CDD:409353" misc_feature 2191..2253 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="propagated from UniProtKB/Swiss-Prot (Q62178.2); transmembrane region" misc_feature 2302..2424 /gene="Sema4a" /gene_synonym="Semab; SemB" /note="propagated from UniProtKB/Swiss-Prot (Q62178.2); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" exon 284..444 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 445..507 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 508..606 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 607..712 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 713..829 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 830..954 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 955..1127 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 1128..1278 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 1279..1459 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 1460..1578 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 1579..1736 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 1737..1834 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" exon 1835..3125 /gene="Sema4a" /gene_synonym="Semab; SemB" /inference="alignment:Splign:2.1.0" ORIGIN
ggatggggttgaagatgggggtgggagggtggcgggaaggaggcactcggagaccggaaagctgagcgcctggcattccagggggagggaagcacagcggaatcccgagctccagaaccatctggtgaccatctcaggctgaccatggccctaccatccctgggccaggactcatggagtctcctgcgtgtttttttcttccaactcttcctgctgccatcactgccacctgcttctgggactggtggtcaggggcccatgcccagagtcaaataccatgctggagacgggcacagggccctcagcttcttccaacaaaaaggcctccgagactttgacacgctgctcctgagtgacgatggcaacactctctatgtgggggctcgagaggccgtcctggccttgaatatccagaacccaggaatcccaaggctaaagaacatgataccctggccagccagtgagagaaaaaagaccgaatgtgcctttaagaagaagagcaatgagacacagtgtttcaacttcattcgagtcctggtctcttacaatgctactcacctctatgcctgtgggacctttgccttcagccctgcctgtaccttcattgaactccaagattccctcctgttgcccatcttgatagacaaggtcatggacgggaagggccaaagcccctttgaccctgttcacaagcacacagctgtcttggtcgatgggatgctttattccggcaccatgaacaacttcctgggcagcgagcccatcctgatgcggacactgggatcccagcctgttctcaagactgacatcttcttacgctggctgcacgcggatgcctccttcgtggcagccattccatccacccaggtcgtctatttcttctttgaggagacagccagcgagtttgacttctttgaagagctgtatatatccagggtggctcaagtctgcaagaacgacgtgggcggtgaaaagctgctgcagaagaagtggaccaccttcctcaaagcccagttgctctgcgctcagccagggcagctgccattcaacatcatccgccacgcggtcctgctgcccgccgattctccctctgtttcccgcatctacgcagtctttacctcccagtggcaggttggcgggaccaggagctcagcagtctgtgccttctctctcacggacattgagcgagtctttaaagggaagtacaaggagctgaacaaggagacctcccgctggaccacttaccggggctcagaggtcagcccgaggccaggcagttgctccatgggcccctcctctgacaaagccttgaccttcatgaaggaccattttctgatggatgagcacgtggtaggaacacccctgctggtgaagtctggtgtggagtacacacggcttgctgtggagtcagctcggggccttgatgggagcagccatgtggtcatgtatctgggtacctccacggggtccctgcacaaggctgtggtgcctcaggacagcagtgcttatctcgtggaggagattcagctgagccctgactctgagcctgttcgaaacctgcagctggcccccgcccagggtgcagtgtttgcaggcttctctggaggcatctggagagttcccagggccaattgcagtgtctacgagagctgtgtggactgtgtgcttgccagggaccctcactgtgcctgggaccctgaatcaagactctgcagccttctgtctggctctaccaagccttggaagcaggacatggaacgcggcaacccggagtgggtatgcacccgtggccccatggccaggagcccccggcgtcagagcccccctcaactaattaaagaagtcctgacagtccccaactccatcctggagctgccctgcccccacctgtcagcactggcctcttaccactggagtcatggccgagccaaaatctcagaagcctctgctaccgtctacaatggctccctcttgctgctgccgcaggatggtgtcgggggcctctaccagtgtgtggcgactgagaacggctactcataccctgtggtctcctattgggtagacagccaggaccagcccctggcgctggaccctgagctggcgggcgttccccgtgagcgtgtgcaggtcccgctgaccagggtcggaggcggagcttccatggctgcccagcggtcctactggccccattttctcatcgttaccgtcctcctggccatcgtgctcctgggagtgctcactctcctcctcgcttccccactgggggcgctgcgggctcggggtaaggttcagggctgtgggatgctgccccccagggaaaaggctccactgagcagggaccagcacctccagccctccaaggaccacaggacctctgccagtgacgtagatgccgacaacaaccatctgggcgccgaagtggcttaaacagggacacagatccgcagctgagcagagcaagccactggccttgttggctatgccaggcacagtgccactctgaccagggtaggaggctctcctgctaacgtgtgtcacctacagcacccagtaggtcctcccctgtgggactctcttctgcaagcacattgggctgtctccatacctgtacttgtgctgtgacaggaagagccagacaggtttctttgattttgattgacccaagagccctcctgtaacaaacgtgctccaggagaccatgaaaggtgtggctgtctgggattctgtggtgacaaacctaagcatccgagcaagctggggctattcctgcaaactccatcctgaacgctgtcactctagaagcagctgctgctttgaacaccagcccaccctccttcccaagagtctctatggagttggccccttgtgtttcctttaccagtcatgccatactgtttgggaagtcatctctgaagtctaaccaccttccttcttgcttcagtttggacagattgttattattgtctctgccctggctagaatggggggcataatctgagccttgttcccttgtccagtgtggctgacccttgacctcttccttcctcctccctttgttttgggattcagaaaactgcttgtcacagacaatttattttttattaaaaaagatataagctttaaag
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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.
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