LOCUS       NM_002342               2134 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens lymphotoxin beta receptor (LTBR), transcript variant
            1, mRNA.
ACCESSION   NM_002342
VERSION     NM_002342.3
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 2134)
  AUTHORS   Tang,Q., Yuan,Y., Li,L., Xu,Y., Ji,W., Xiao,S., Han,Y., Miao,W.,
            Cai,J., You,P., Chen,M., Ding,S., Li,Z., Qi,Z., Hou,W. and Luo,H.
  TITLE     Comprehensive analysis reveals that LTBR is a immune-related
            biomarker for glioma
  JOURNAL   Comput Biol Med 174, 108457 (2024)
   PUBMED   38599071
  REMARK    GeneRIF: Comprehensive analysis reveals that LTBR is a
            immune-related biomarker for glioma.
REFERENCE   2  (bases 1 to 2134)
  AUTHORS   Wu,Y., Zhao,S., Guo,W., Liu,Y., Requena Mullor,M.D.M.,
            Rodriguez,R.A. and Wei,R.
  TITLE     Systematic analysis of the prognostic value and immunological
            function of LTBR in human cancer
  JOURNAL   Aging (Albany NY) 16 (1), 129-152 (2024)
   PUBMED   38175686
  REMARK    GeneRIF: Systematic analysis of the prognostic value and
            immunological function of LTBR in human cancer.
REFERENCE   3  (bases 1 to 2134)
  AUTHORS   Abudukeyoumu,A., Lai,Z.Z., Lu,J.J., Zhang,X., Hou,D.Y., Dong,J.,
            Wu,J.N., Li,M.Q. and Xie,F.
  TITLE     A LIGHT-HVEM/LTbetaR axis contributes to the fibrosis of
            intrauterine adhesion
  JOURNAL   J Reprod Immunol 153, 103693 (2022)
   PUBMED   35987137
  REMARK    GeneRIF: A LIGHT-HVEM/LTbetaR axis contributes to the fibrosis of
            intrauterine adhesion.
REFERENCE   4  (bases 1 to 2134)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 2134)
  AUTHORS   Remouchamps,C., Boutaffala,L., Ganeff,C. and Dejardin,E.
  TITLE     Biology and signal transduction pathways of the
            Lymphotoxin-alphabeta/LTbetaR system
  JOURNAL   Cytokine Growth Factor Rev 22 (5-6), 301-310 (2011)
   PUBMED   22152226
  REMARK    Review article
REFERENCE   6  (bases 1 to 2134)
  AUTHORS   Nakano,H., Oshima,H., Chung,W., Williams-Abbott,L., Ware,C.F.,
            Yagita,H. and Okumura,K.
  TITLE     TRAF5, an activator of NF-kappaB and putative signal transducer for
            the lymphotoxin-beta receptor
  JOURNAL   J Biol Chem 271 (25), 14661-14664 (1996)
   PUBMED   8663299
REFERENCE   7  (bases 1 to 2134)
  AUTHORS   Browning,J.L., Miatkowski,K., Sizing,I., Griffiths,D., Zafari,M.,
            Benjamin,C.D., Meier,W. and Mackay,F.
  TITLE     Signaling through the lymphotoxin beta receptor induces the death
            of some adenocarcinoma tumor lines
  JOURNAL   J Exp Med 183 (3), 867-878 (1996)
   PUBMED   8642291
REFERENCE   8  (bases 1 to 2134)
  AUTHORS   Baens,M., Aerssens,J., van Zand,K., Van den Berghe,H. and
            Marynen,P.
  TITLE     Isolation and regional assignment of human chromosome 12p cDNAs
  JOURNAL   Genomics 29 (1), 44-52 (1995)
   PUBMED   8530100
REFERENCE   9  (bases 1 to 2134)
  AUTHORS   Crowe,P.D., VanArsdale,T.L., Walter,B.N., Ware,C.F., Hession,C.,
            Ehrenfels,B., Browning,J.L., Din,W.S., Goodwin,R.G. and Smith,C.A.
  TITLE     A lymphotoxin-beta-specific receptor
  JOURNAL   Science 264 (5159), 707-710 (1994)
   PUBMED   8171323
REFERENCE   10 (bases 1 to 2134)
  AUTHORS   Baens,M., Chaffanet,M., Cassiman,J.J., van den Berghe,H. and
            Marynen,P.
  TITLE     Construction and evaluation of a hncDNA library of human 12p
            transcribed sequences derived from a somatic cell hybrid
  JOURNAL   Genomics 16 (1), 214-218 (1993)
   PUBMED   8486360
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA679291.1, L04270.1,
            BC026262.1 and AK027080.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_002342.2.
            
            Summary: This gene encodes a member of the tumor necrosis factor
            receptor superfamily. The major ligands of this receptor include
            lymphotoxin alpha/beta and tumor necrosis factor ligand superfamily
            member 14. The encoded protein plays a role in signalling during
            the development of lymphoid and other organs, lipid metabolism,
            immune response, and programmed cell death. Activity of this
            receptor has also been linked to carcinogenesis. Alternatively
            spliced transcript variants encoding multiple isoforms have been
            observed. [provided by RefSeq, Aug 2012].
            
            Transcript Variant: This variant (1) encodes 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 :: SRR1163657.519342.1, BC026262.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000228918.9/ ENSP00000228918.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-29                DA679291.1         130-158
            30-712              L04270.1           1-683
            713-2131            BC026262.1         714-2132
            2132-2134           AK027080.1         2126-2128
FEATURES             Location/Qualifiers
     source          1..2134
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12p13.31"
     gene            1..2134
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /note="lymphotoxin beta receptor"
                     /db_xref="GeneID:4055"
                     /db_xref="HGNC:HGNC:6718"
                     /db_xref="MIM:600979"
     exon            1..293
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     CDS             198..1505
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; tumor necrosis factor C receptor; lymphotoxin B
                     receptor; tumor necrosis factor receptor type III;
                     lymphotoxin beta receptor (TNFR superfamily, member 3);
                     tumor necrosis factor receptor 2-related protein"
                     /codon_start=1
                     /product="tumor necrosis factor receptor superfamily
                     member 3 isoform 1 precursor"
                     /protein_id="NP_002333.1"
                     /db_xref="CCDS:CCDS8544.1"
                     /db_xref="GeneID:4055"
                     /db_xref="HGNC:HGNC:6718"
                     /db_xref="MIM:600979"
                     /translation="MLLPWATSAPGLAWGPLVLGLFGLLAASQPQAVPPYASENQTCR
                     DQEKEYYEPQHRICCSRCPPGTYVSAKCSRIRDTVCATCAENSYNEHWNYLTICQLCR
                     PCDPVMGLEEIAPCTSKRKTQCRCQPGMFCAAWALECTHCELLSDCPPGTEAELKDEV
                     GKGNNHCVPCKAGHFQNTSSPSARCQPHTRCENQGLVEAAPGTAQSDTTCKNPLEPLP
                     PEMSGTMLMLAVLLPLAFFLLLATVFSCIWKSHPSLCRKLGSLLKRRPQGEGPNPVAG
                     SWEPPKAHPYFPDLVQPLLPISGDVSPVSTGLPAAPVLEAGVPQQQSPLDLTREPQLE
                     PGEQSQVAHGTNGIHVTGGSMTITGNIYIYNGPVLGGPPGPGDLPATPEPPYPIPEEG
                     DPGPPGLSTPHQEDGKAWHLAETEHCGATPSNRGPRNQFITHD"
     exon            294..390
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            391..516
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            517..669
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            670..766
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            767..864
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            865..972
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            973..998
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            999..1227
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     exon            1228..2134
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2115..2120
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /note="hexamer: AATAAA"
     polyA_site      2134
                     /gene="LTBR"
                     /gene_synonym="D12S370; LT-BETA-R; TNF-R-III; TNFCR;
                     TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3"
                     /note="major polyA site"
ORIGIN      
        1 actcccactt cctgagctcc gccatgggag ccctggaggc ccggcctggc cgctcccggc
       61 cctggggtgc acatcggccc tgagtcccgt cccaggctct gggctcgggc agccgccgcc
      121 accgctgccc aggacgtcgg gcctcctgcc ttcctcccag gcccccacgt tgctggccgc
      181 ctggccgagt ggccgccatg ctcctgcctt gggccacctc tgcccccggc ctggcctggg
      241 ggcctctggt gctgggcctc ttcgggctcc tggcagcatc gcagccccag gcggtgcctc
      301 catatgcgtc ggagaaccag acctgcaggg accaggaaaa ggaatactat gagccccagc
      361 accgcatctg ctgctcccgc tgcccgccag gcacctatgt ctcagctaaa tgtagccgca
      421 tccgggacac agtttgtgcc acatgtgccg agaattccta caacgagcac tggaactacc
      481 tgaccatctg ccagctgtgc cgcccctgtg acccagtgat gggcctcgag gagattgccc
      541 cctgcacaag caaacggaag acccagtgcc gctgccagcc gggaatgttc tgtgctgcct
      601 gggccctcga gtgtacacac tgcgagctac tttctgactg cccgcctggc actgaagccg
      661 agctcaaaga tgaagttggg aagggtaaca accactgcgt cccctgcaag gccgggcact
      721 tccagaatac ctcctccccc agcgcccgct gccagcccca caccaggtgt gagaaccaag
      781 gtctggtgga ggcagctcca ggcactgccc agtccgacac aacctgcaaa aatccattag
      841 agccactgcc cccagagatg tcaggaacca tgctgatgct ggccgttctg ctgccactgg
      901 ccttctttct gctccttgcc accgtcttct cctgcatctg gaagagccac ccttctctct
      961 gcaggaaact gggatcgctg ctcaagaggc gtccgcaggg agagggaccc aatcctgtag
     1021 ctggaagctg ggagcctccg aaggcccatc catacttccc tgacttggta cagccactgc
     1081 tacccatttc tggagatgtt tccccagtat ccactgggct ccccgcagcc ccagttttgg
     1141 aggcaggggt gccgcaacag cagagtcctc tggacctgac cagggagccg cagttggaac
     1201 ccggggagca gagccaggtg gcccacggta ccaatggcat tcatgtcacc ggcgggtcta
     1261 tgactatcac tggcaacatc tacatctaca atggaccagt actgggggga ccaccgggtc
     1321 ctggagacct cccagctacc cccgaacctc cataccccat tcccgaagag ggggaccctg
     1381 gccctcccgg gctctctaca ccccaccagg aagatggcaa ggcttggcac ctagcggaga
     1441 cagagcactg tggtgccaca ccctctaaca ggggcccaag gaaccaattt atcacccatg
     1501 actgactgag tctgagaaaa ggcagaagaa ggggggcaca agggcacctt ctcccttgag
     1561 gctgccctgc ccacgtggga ttcacagggg cctgagtagg gcccggggaa gcagagccct
     1621 aagggattaa ggctcagaca cctctgagag caggtgggca ctggctgggt acggtgccct
     1681 ccacaggact ctccctactg cctgagcaaa cctgaggcct cccggcagac ccacccaccc
     1741 cctggggctg ctcagcctca ggcacggaca gggcacatga taccaactgc tgcccactac
     1801 ggcacgccgc accggagcac ggcaccgagg gagccgccac acggtcacct gcaaggacgt
     1861 cacgggcccc tctaaaggat tcgtggtgct catccccaag cttcagagac cctttggggt
     1921 tccacacttc acgtggactg aggtagaccc tgcatgaaga tgaaattata gggaggacgc
     1981 tccttccctc ccctcctaga ggagaggaaa gggagtcatt aacaactagg gggttgggta
     2041 ggattcctag gtatggggaa gagttttgga aggggaggaa aatggcaagt gtatttatat
     2101 tgtaaccaca tgcaaataaa aagaatggga ccta
//
