LOCUS       NM_011611               1683 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus CD40 antigen (Cd40), transcript variant 1, mRNA.
ACCESSION   NM_011611
VERSION     NM_011611.2
KEYWORDS    RefSeq; RefSeq Select.
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 1683)
  AUTHORS   Challagundla,N., Shah,D., Dalai,S.K. and Agrawal-Rajput,R.
  TITLE     IFNgamma insufficiency during mouse intra-vaginal Chlamydia
            trachomatis infection exacerbates alternative activation in
            macrophages with compromised CD40 functions
  JOURNAL   Int Immunopharmacol 131, 111821 (2024)
   PUBMED   38484664
  REMARK    GeneRIF: IFNgamma insufficiency during mouse intra-vaginal
            Chlamydia trachomatis infection exacerbates alternative activation
            in macrophages with compromised CD40 functions.
REFERENCE   2  (bases 1 to 1683)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   3  (bases 1 to 1683)
  AUTHORS   Lu,Y., Chiang,J., Zhang,R., Roche,P.A. and Hodes,R.J.
  TITLE     TRAF6 and TRAF2/3 Binding Motifs in CD40 Differentially Regulate B
            Cell Function in T-Dependent Antibody Responses and Dendritic Cell
            Function in Experimental Autoimmune Encephalomyelitis
  JOURNAL   J Immunol 211 (12), 1814-1822 (2023)
   PUBMED   37921511
  REMARK    GeneRIF: TRAF6 and TRAF2/3 Binding Motifs in CD40 Differentially
            Regulate B Cell Function in T-Dependent Antibody Responses and
            Dendritic Cell Function in Experimental Autoimmune
            Encephalomyelitis.
REFERENCE   4  (bases 1 to 1683)
  AUTHORS   Yamamoto,Y., Fujihara,C., Nantakeeratipat,T., Matsumoto,M.,
            Noguchi,T., Kitagawa,M., Yamada,S., Takata,T., Kitaura,H. and
            Murakami,S.
  TITLE     CD40-CD40 ligand interaction between periodontal ligament cells and
            cementoblasts enhances periodontal tissue remodeling in response to
            mechanical stress
  JOURNAL   J Periodontal Res 58 (6), 1261-1271 (2023)
   PUBMED   37723604
  REMARK    GeneRIF: CD40-CD40 ligand interaction between periodontal ligament
            cells and cementoblasts enhances periodontal tissue remodeling in
            response to mechanical stress.
REFERENCE   5  (bases 1 to 1683)
  AUTHORS   Calzada-Fraile,D., Iborra,S., Ramirez-Huesca,M., Jorge,I.,
            Dotta,E., Hernandez-Garcia,E., Martin-Cofreces,N.,
            Nistal-Villan,E., Veiga,E., Vazquez,J., Pasqual,G. and
            Sanchez-Madrid,F.
  TITLE     Immune synapse formation promotes lipid peroxidation and MHC-I
            upregulation in licensed dendritic cells for efficient priming of
            CD8+ T cells
  JOURNAL   Nat Commun 14 (1), 6772 (2023)
   PUBMED   37880206
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1683)
  AUTHORS   Santos-Argumedo,L., Gordon,J., Heath,A.W. and Howard,M.
  TITLE     Antibodies to murine CD40 protect normal and malignant B cells from
            induced growth arrest
  JOURNAL   Cell Immunol 156 (2), 272-285 (1994)
   PUBMED   7517793
REFERENCE   7  (bases 1 to 1683)
  AUTHORS   Hasbold,J. and Klaus,G.G.
  TITLE     B cells from CBA/N mice do not proliferate following ligation of
            CD40
  JOURNAL   Eur J Immunol 24 (1), 152-157 (1994)
   PUBMED   7517360
REFERENCE   8  (bases 1 to 1683)
  AUTHORS   Grimaldi,J.C., Torres,R., Kozak,C.A., Chang,R., Clark,E.A.,
            Howard,M. and Cockayne,D.A.
  TITLE     Genomic structure and chromosomal mapping of the murine CD40 gene
  JOURNAL   J Immunol 149 (12), 3921-3926 (1992)
   PUBMED   1281194
REFERENCE   9  (bases 1 to 1683)
  AUTHORS   Morse,H.C. 3rd.
  TITLE     Genetic nomenclature for loci controlling surface antigens of mouse
            hemopoietic cells
  JOURNAL   J Immunol 149 (10), 3129-3134 (1992)
   PUBMED   1431091
  REMARK    Review article
            Erratum:[J Immunol 1993 Mar 15;150(6):2563]
REFERENCE   10 (bases 1 to 1683)
  AUTHORS   Torres,R.M. and Clark,E.A.
  TITLE     Differential increase of an alternatively polyadenylated mRNA
            species of murine CD40 upon B lymphocyte activation
  JOURNAL   J Immunol 148 (2), 620-626 (1992)
   PUBMED   1370315
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL591495.12, BY259264.1, BY743050.1, AI385482.1 and AL591411.14.
            
            [WARNING] On Jul 17, 2024 this sequence was replaced by
            NM_011611.3.
            
            On Jul 8, 2005 this sequence version replaced NM_011611.1.
            
            Transcript Variant: This variant (1) encodes the longest 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 :: AK161978.1, AK162305.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-123               AL591495.12        238255-238377
            124-454             BY259264.1         121-451
            455-707             BY743050.1         411-663
            708-1043            AI385482.1         105-440
            1044-1683           AL591411.14        139375-140014       c
FEATURES             Location/Qualifiers
     source          1..1683
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 85.38 cM"
     gene            1..1683
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /note="CD40 antigen"
                     /db_xref="GeneID:21939"
                     /db_xref="MGI:MGI:88336"
     exon            1..123
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     CDS             73..942
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; tumor necrosis factor receptor superfamily
                     member 5; CD40L receptor; B-cell surface antigen CD40;
                     T-cell differentiation antigen"
                     /codon_start=1
                     /product="tumor necrosis factor receptor superfamily
                     member 5 isoform 1 precursor"
                     /protein_id="NP_035741.2"
                     /db_xref="CCDS:CCDS17069.1"
                     /db_xref="GeneID:21939"
                     /db_xref="MGI:MGI:88336"
                     /translation="MVSLPRLCALWGCLLTAVHLGQCVTCSDKQYLHDGQCCDLCQPG
                     SRLTSHCTALEKTQCHPCDSGEFSAQWNREIRCHQHRHCEPNQGLRVKKEGTAESDTV
                     CTCKEGQHCTSKDCEACAQHTPCIPGFGVMEMATETTDTVCHPCPVGFFSNQSSLFEK
                     CYPWTSCEDKNLEVLQKGTSQTNVICGLKSRMRALLVIPVVMGILITIFGVFLYIKKV
                     VKKPKDNEILPPAARRQDPQEMEDYPGHNTAAPVQETLHGCQPVTQEDGKESRISVQE
                     RQVTDSIALRPLV"
     exon            124..202
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            203..328
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            329..475
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            476..569
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            570..631
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            632..718
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            719..750
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            751..1683
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1281..1286
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /note="hexamer: AATAAA"
     polyA_site      1305
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /note="major polyA site"
     regulatory      1648..1653
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /note="hexamer: AATAAA"
     polyA_site      1680
                     /gene="Cd40"
                     /gene_synonym="Bp50; GP39; HIGM1; IGM; IMD3; p50; T-BAM;
                     Tnfrsf5; TRAP"
                     /note="major polyA site"
ORIGIN      
        1 agcagggact ttggagtgac ttgtggcttc agcaggagcc ctgtgatttg gctcttctga
       61 tctcgccctg cgatggtgtc tttgcctcgg ctgtgcgcgc tatggggctg cttgttgaca
      121 gcggtccatc tagggcagtg tgttacgtgc agtgacaaac agtacctcca cgatggccag
      181 tgctgtgatt tgtgccagcc aggaagccga ctgacaagcc actgcacagc tcttgagaag
      241 acccaatgcc acccatgtga ctcaggcgaa ttctcagccc agtggaacag ggagattcgc
      301 tgtcaccagc acagacactg tgaacccaat caagggcttc gggttaagaa ggagggcacc
      361 gcagaatcag acactgtctg tacctgtaag gaaggacaac actgcaccag caaggattgc
      421 gaggcatgtg ctcagcacac gccctgtatc cctggctttg gagttatgga gatggccact
      481 gagaccactg ataccgtctg tcatccctgc ccagtcggct tcttctccaa tcagtcatca
      541 cttttcgaaa agtgttatcc ctggacaagc tgtgaggata agaacttgga ggtcctacag
      601 aaaggaacga gtcagactaa tgtcatctgt ggtttaaagt cccggatgcg agccctgctg
      661 gtcattcctg tcgtgatggg catcctcatc accattttcg gggtgtttct ctatatcaaa
      721 aaggtggtca agaaaccaaa ggataatgag atcttacccc ctgcggctcg acggcaagat
      781 ccccaggaga tggaagatta tcccggtcat aacaccgctg ctccagtgca ggagacgctg
      841 cacgggtgtc agcctgtcac acaggaggat ggtaaagaga gtcgcatctc agtgcaggag
      901 cggcaggtga cagacagcat agccttgagg cccctggtct gaaccctgga actgctttgg
      961 aggcgatggc tcggctcggg agcaggggcc tggctctgag gactgcttgc tgacctttga
     1021 agtttgagat gagccaagac agagcccagt gcagctaact ctcatgcctg ccccctatca
     1081 tttctcaact tgctttttaa ggatggaggg agagctcggg catcgggggt ccacagtgat
     1141 acctaccaag tgcagcagtg caggacccag agtcgtcttg ctgcggcgtt cactgtaagg
     1201 agtcatggac acaggagtcc gtggcccaca gcttgtgctg ctagagggca cctggttgcc
     1261 catcagcagg gtactggcta aataaatctg taattattta tacaatgaca tctcagaaac
     1321 tctagcaggt ggggcagaaa acaggtagta gaatgatggg tagagaaata gcttttaaaa
     1381 cacattccaa ggcaggtaag atggcttttg tgagtaaagg agcttgctgc ccaaacccgg
     1441 ttacctgatt ttgatccctg ggacttcatg gtaaaaggga gagaaccaaa tccagagggt
     1501 tgtcatttga cctccatgtg tgctctgtgg taatgtaccc cgtgtgtgca catgtgcaca
     1561 tatcctaaaa tggatgtggt ggtgtattgt agaaattatt taatcccgcc ctggggtttc
     1621 tacctgtgtg ttaccattta gttcttgaat aaaagacaca ctcaaccttt atatttacaa
     1681 taa
//
