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Previous release (v1)
2024-09-29 09:29:48, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001163489 3067 bp mRNA linear ROD 15-JUN-2024
DEFINITION Mus musculus sema domain, immunoglobulin domain (Ig), transmembrane
domain (TM) and short cytoplasmic domain, (semaphorin) 4A (Sema4a),
transcript variant 2, mRNA.
ACCESSION NM_001163489
VERSION NM_001163489.2
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 3067)
AUTHORS Bhat,G.P., Maurizio,A., Motta,A., Podini,P., Diprima,S.,
Malpighi,C., Brambilla,I., Martins,L., Badaloni,A., Boselli,D.,
Bianchi,F., Pellegatta,M., Genua,M., Ostuni,R., Del Carro,U.,
Taveggia,C., de Pretis,S., Quattrini,A. and Bonanomi,D.
TITLE Structured wound angiogenesis instructs mesenchymal barrier
compartments in the regenerating nerve
JOURNAL Neuron 112 (2), 209-229 (2024)
PUBMED 37972594
REFERENCE 2 (bases 1 to 3067)
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
REFERENCE 3 (bases 1 to 3067)
AUTHORS Martins,L.F., Brambilla,I., Motta,A., de Pretis,S., Bhat,G.P.,
Badaloni,A., Malpighi,C., Amin,N.D., Imai,F., Almeida,R.D.,
Yoshida,Y., Pfaff,S.L. 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 4 (bases 1 to 3067)
AUTHORS Xu,R., Hoss,C., Swiercz,J.M., Brandt,D.T., Lutz,V., Petersen,N.,
Li,R., Zhao,D., Oleksy,A., Creigh-Pulatmen,T., Trokter,M.,
Fedorova,M., Atzberger,A., Strandby,R.B., Olsen,A.A., Achiam,M.P.,
Matthews,D., Huber,M., Grone,H.J., 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 5 (bases 1 to 3067)
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 6 (bases 1 to 3067)
AUTHORS Oster,S.F., Bodeker,M.O., He,F. and Sretavan,D.W.
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 3067)
AUTHORS Dionne,M.S., Brunet,L.J., Eimon,P.M. and Harland,R.M.
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 3067)
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 3067)
AUTHORS Puschel,A.W., Adams,R.H. 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 3067)
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 VALIDATED REFSEQ: This record has undergone validation or
preliminary review. The reference sequence was derived from
AC102388.7.
On Mar 19, 2024 this sequence version replaced NM_001163489.1.
Sequence Note:.
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 :: X85991.1, SRR7652917.1270839.1
[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
1-54 AC102388.7 29722-29775
55-222 AC102388.7 36076-36243
223-383 AC102388.7 37791-37951
384-446 AC102388.7 38840-38902
447-545 AC102388.7 39136-39234
546-651 AC102388.7 39472-39577
652-768 AC102388.7 40295-40411
769-893 AC102388.7 40810-40934
894-1066 AC102388.7 41070-41242
1067-1217 AC102388.7 42781-42931
1218-1398 AC102388.7 50044-50224
1399-1517 AC102388.7 52361-52479
1518-1675 AC102388.7 52582-52739
1676-1773 AC102388.7 53022-53119
1774-3067 AC102388.7 53670-54963
FEATURES Location/Qualifiers
source 1..3067
/organism="Mus musculus"
/mol_type="mRNA"
/strain="C57BL/6"
/db_xref="taxon:10090"
/chromosome="3"
/map="3 38.83 cM"
gene 1..3067
/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..54
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 55..222
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
CDS 84..2366
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="semaphorin-4A; sema B; semaphorin-B"
/codon_start=1
/product="semaphorin-4A precursor"
/protein_id="NP_001156961.1"
/db_xref="CCDS:CCDS17475.1"
/db_xref="GeneID:20351"
/db_xref="MGI:MGI:107560"
/translation="
MALPSLGQDSWSLLRVFFFQLFLLPSLPPASGTGGQGPMPRVKYHAGDGHRALSFFQQKGLRDFDTLLLSDDGNTLYVGAREAVLALNIQNPGIPRLKNMIPWPASERKKTECAFKKKSNETQCFNFIRVLVSYNATHLYACGTFAFSPACTFIELQDSLLLPILIDKVMDGKGQSPFDPVHKHTAVLVDGMLYSGTMNNFLGSEPILMRTLGSQPVLKTDIFLRWLHADASFVAAIPSTQVVYFFFEETASEFDFFEELYISRVAQVCKNDVGGEKLLQKKWTTFLKAQLLCAQPGQLPFNIIRHAVLLPADSPSVSRIYAVFTSQWQVGGTRSSAVCAFSLTDIERVFKGKYKELNKETSRWTTYRGSEVSPRPGSCSMGPSSDKALTFMKDHFLMDEHVVGTPLLVKSGVEYTRLAVESARGLDGSSHVVMYLGTSTGSLHKAVVPQDSSAYLVEEIQLSPDSEPVRNLQLAPAQGAVFAGFSGGIWRVPRANCSVYESCVDCVLARDPHCAWDPESRLCSLLSGSTKPWKQDMERGNPEWVCTRGPMARSPRRQSPPQLIKEVLTVPNSILELPCPHLSALASYHWSHGRAKISEASATVYNGSLLLLPQDGVGGLYQCVATENGYSYPVVSYWVDSQDQPLALDPELAGVPRERVQVPLTRVGGGASMAAQRSYWPHFLIVTVLLAIVLLGVLTLLLASPLGALRARGKVQGCGMLPPREKAPLSRDQHLQPSKDHRTSASDVDADNNHLGAEVA"
sig_peptide 84..179
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="COORDINATES: ab initio prediction:SignalP:6.0"
mat_peptide 180..2363
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/product="Semaphorin-4A. /id=PRO_0000032323"
/note="propagated from UniProtKB/Swiss-Prot (Q62178.2)"
misc_feature 246..1568
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="The Sema domain, a protein interacting module, of
semaphorins and plexins; Region: Sema; cl15693"
/db_xref="CDD:472829"
misc_feature 441..443
/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 486..488
/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 1569..1703
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="domain found in Plexins, Semaphorins and Integrins;
Region: PSI; smart00423"
/db_xref="CDD:214655"
misc_feature 1569..1571
/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 1791..1994
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="Immunoglobulin domain; Region: Ig; cl11960"
/db_xref="CDD:472250"
misc_feature 1806..1820
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="Ig strand B [structural motif]; Region: Ig strand
B"
/db_xref="CDD:409456"
misc_feature 1842..1856
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="Ig strand C [structural motif]; Region: Ig strand
C"
/db_xref="CDD:409456"
misc_feature 1899..1913
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="Ig strand E [structural motif]; Region: Ig strand
E"
/db_xref="CDD:409456"
misc_feature 1899..1901
/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 1941..1958
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="Ig strand F [structural motif]; Region: Ig strand
F"
/db_xref="CDD:409456"
misc_feature 2130..2192
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="propagated from UniProtKB/Swiss-Prot (Q62178.2);
transmembrane region"
misc_feature 2241..2363
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="propagated from UniProtKB/Swiss-Prot (Q62178.2);
Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
exon 223..383
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 384..446
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 447..545
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 546..651
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 652..768
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 769..893
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 894..1066
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 1067..1217
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 1218..1398
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 1399..1517
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 1518..1675
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 1676..1773
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
exon 1774..3067
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/inference="alignment:Splign:2.1.0"
regulatory 3040..3045
/regulatory_class="polyA_signal_sequence"
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="hexamer: ATTAAA"
polyA_site 3067
/gene="Sema4a"
/gene_synonym="Semab; SemB"
/note="major polyA site"
ORIGIN
acagactctgctggaattctcggacgcctgggttaggggtctgtactgctggggaaccatctggtgaccatctcaggctgaccatggccctaccatccctgggccaggactcatggagtctcctgcgtgtttttttcttccaactcttcctgctgccatcactgccacctgcttctgggactggtggtcaggggcccatgcccagagtcaaataccatgctggagacgggcacagggccctcagcttcttccaacaaaaaggcctccgagactttgacacgctgctcctgagtgacgatggcaacactctctatgtgggggctcgagaggccgtcctggccttgaatatccagaacccaggaatcccaaggctaaagaacatgataccctggccagccagtgagagaaaaaagaccgaatgtgcctttaagaagaagagcaatgagacacagtgtttcaacttcattcgagtcctggtctcttacaatgctactcacctctatgcctgtgggacctttgccttcagccctgcctgtaccttcattgaactccaagattccctcctgttgcccatcttgatagacaaggtcatggacgggaagggccaaagcccctttgaccctgttcacaagcacacagctgtcttggtcgatgggatgctttattccggcaccatgaacaacttcctgggcagcgagcccatcctgatgcggacactgggatcccagcctgttctcaagactgacatcttcttacgctggctgcacgcggatgcctccttcgtggcagccattccatccacccaggtcgtctatttcttctttgaggagacagccagcgagtttgacttctttgaagagctgtatatatccagggtggctcaagtctgcaagaacgacgtgggcggtgaaaagctgctgcagaagaagtggaccaccttcctcaaagcccagttgctctgcgctcagccagggcagctgccattcaacatcatccgccacgcggtcctgctgcccgccgattctccctctgtttcccgcatctacgcagtctttacctcccagtggcaggttggcgggaccaggagctcagcagtctgtgccttctctctcacggacattgagcgagtctttaaagggaagtacaaggagctgaacaaggagacctcccgctggaccacttaccggggctcagaggtcagcccgaggccaggcagttgctccatgggcccctcctctgacaaagccttgaccttcatgaaggaccattttctgatggatgagcacgtggtaggaacacccctgctggtgaagtctggtgtggagtacacacggcttgctgtggagtcagctcggggccttgatgggagcagccatgtggtcatgtatctgggtacctccacggggtccctgcacaaggctgtggtgcctcaggacagcagtgcttatctcgtggaggagattcagctgagccctgactctgagcctgttcgaaacctgcagctggcccccgcccagggtgcagtgtttgcaggcttctctggaggcatctggagagttcccagggccaattgcagtgtctacgagagctgtgtggactgtgtgcttgccagggaccctcactgtgcctgggaccctgaatcaagactctgcagccttctgtctggctctaccaagccttggaagcaggacatggaacgcggcaacccggagtgggtatgcacccgtggccccatggccaggagcccccggcgtcagagcccccctcaactaattaaagaagtcctgacagtccccaactccatcctggagctgccctgcccccacctgtcagcactggcctcttaccactggagtcatggccgagccaaaatctcagaagcctctgctaccgtctacaatggctccctcttgctgctgccgcaggatggtgtcgggggcctctaccagtgtgtggcgactgagaacggctactcataccctgtggtctcctattgggtagacagccaggaccagcccctggcgctggaccctgagctggcgggcgttccccgtgagcgtgtgcaggtcccgctgaccagggtcggaggcggagcttccatggctgcccagcggtcctactggccccattttctcatcgttaccgtcctcctggccatcgtgctcctgggagtgctcactctcctcctcgcttccccactgggggcgctgcgggctcggggtaaggttcagggctgtgggatgctgccccccagggaaaaggctccactgagcagggaccagcacctccagccctccaaggaccacaggacctctgccagtgacgtagatgccgacaacaaccatctgggcgccgaagtggcttaaacagggacacagatccgcagctgagcagagcaagccactggccttgttggctatgccaggcacagtgccactctgaccagggtaggaggctctcctgctaacgtgtgtcacctacagcacccagtaggtcctcccctgtgggactctcttctgcaagcacattgggctgtctccatacctgtacttgtgctgtgacaggaagagccagacaggtttctttgattttgattgacccaagagccctcctgtaacaaacgtgctccaggagaccatgaaaggtgtggctgtctgggattctgtggtgacaaacctaagcatccgagcaagctggggctattcctgcaaactccatcctgaacgctgtcactctagaagcagctgctgctttgaacaccagcccaccctccttcccaagagtctctatggagttggccccttgtgtttcctttaccagtcatgccatactgtttgggaagtcatctctgaagtctaaccaccttccttcttgcttcagtttggacagattgttattattgtctctgccctggctagaatggggggcataatctgagccttgttcccttgtccagtgtggctgacccttgacctcttccttcctcctccctttgttttgggattcagaaaactgcttgtcacagacaatttattttttattaaaaaagatataagctttaaagaaa
//
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.
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