LOCUS       NM_002341                893 bp    mRNA    linear   PRI 10-FEB-2025
DEFINITION  Homo sapiens lymphotoxin beta (LTB), transcript variant 1, mRNA.
ACCESSION   NM_002341
VERSION     NM_002341.2
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 893)
  AUTHORS   Wang,X., Zhang,T., Zheng,B., Lu,Y., Liang,Y., Xu,G., Zhao,L.,
            Tao,Y., Song,Q., You,H., Hu,H., Li,X., Sun,K., Li,T., Zhang,Z.,
            Wang,J., Lan,X., Pan,D., Fu,Y.X., Yue,B. and Zheng,H.
  TITLE     Lymphotoxin-beta promotes breast cancer bone metastasis
            colonization and osteolytic outgrowth
  JOURNAL   Nat Cell Biol 26 (9), 1597-1612 (2024)
   PUBMED   39147874
  REMARK    GeneRIF: Lymphotoxin-beta promotes breast cancer bone metastasis
            colonization and osteolytic outgrowth.
REFERENCE   2  (bases 1 to 893)
  AUTHORS   Sun,L., Hu,L., Chen,P., Li,Y., Tu,J. and Chen,J.
  TITLE     Long Non-Coding RNA AL928768.3 Promotes Rheumatoid Arthritis
            Fibroblast-Like Synoviocytes Proliferation, Invasion and
            Inflammation, While Inhibits Apoptosis Via Activating Lymphotoxin
            Beta Mediated NF-kappaB Signaling Pathway
  JOURNAL   Inflammation 47 (2), 543-556 (2024)
   PUBMED   37919527
  REMARK    GeneRIF: Long Non-Coding RNA AL928768.3 Promotes Rheumatoid
            Arthritis Fibroblast-Like Synoviocytes Proliferation, Invasion and
            Inflammation, While Inhibits Apoptosis Via Activating Lymphotoxin
            Beta Mediated NF-kappaB Signaling Pathway.
REFERENCE   3  (bases 1 to 893)
  AUTHORS   Tsuda,N., Tian,Y., Fujimoto,M., Kuramoto,J., Makiuchi,S., Ojima,H.,
            Gotoh,M., Hiraoka,N., Yoshida,T., Kanai,Y. and Arai,E.
  TITLE     DNA methylation status of the SPHK1 and LTB genes underlies the
            clinicopathological diversity of non-alcoholic
            steatohepatitis-related hepatocellular carcinomas
  JOURNAL   J Cancer Res Clin Oncol 149 (8), 5109-5125 (2023)
   PUBMED   36348017
  REMARK    GeneRIF: DNA methylation status of the SPHK1 and LTB genes
            underlies the clinicopathological diversity of non-alcoholic
            steatohepatitis-related hepatocellular carcinomas.
REFERENCE   4  (bases 1 to 893)
  AUTHORS   Harris,C.S., Miaskowski,C.A., Conley,Y.P., Hammer,M.J.,
            Dhruva,A.A., Levine,J.D., Olshen,A.B. and Kober,K.M.
  TITLE     Gastrointestinal Symptom Cluster is Associated With Epigenetic
            Regulation of Lymphotoxin Beta in Oncology Patients Receiving
            Chemotherapy
  JOURNAL   Biol Res Nurs 25 (1), 51-64 (2023)
   PUBMED   35929442
  REMARK    GeneRIF: Gastrointestinal Symptom Cluster is Associated With
            Epigenetic Regulation of Lymphotoxin Beta in Oncology Patients
            Receiving Chemotherapy.
REFERENCE   5  (bases 1 to 893)
  AUTHORS   Hsu,D.S., Hwang,W.L., Yuh,C.H., Chu,C.H., Ho,Y.H., Chen,P.B.,
            Lin,H.S., Lin,H.K., Wu,S.P., Lin,C.Y., Hsu,W.H., Lan,H.Y.,
            Wang,H.J., Tai,S.K., Hung,M.C. and Yang,M.H.
  TITLE     Lymphotoxin-beta Interacts with Methylated EGFR to Mediate Acquired
            Resistance to Cetuximab in Head and Neck Cancer
  JOURNAL   Clin Cancer Res 23 (15), 4388-4401 (2017)
   PUBMED   28196873
  REMARK    GeneRIF: Combination of an EGFR tyrosine kinase inhibitor and a
            NF-kappaB inhibitor effectively suppressed cetuximab-resistant
            HNSCC and interfering with the EGFR-LTbeta interaction reverses
            resistance.
REFERENCE   6  (bases 1 to 893)
  AUTHORS   Holzinger,I., de Baey,A., Messer,G., Kick,G., Zwierzina,H. and
            Weiss,E.H.
  TITLE     Cloning and genomic characterization of LST1: a new gene in the
            human TNF region
  JOURNAL   Immunogenetics 42 (5), 315-322 (1995)
   PUBMED   7590964
REFERENCE   7  (bases 1 to 893)
  AUTHORS   Browning,J.L., Androlewicz,M.J. and Ware,C.F.
  TITLE     Lymphotoxin and an associated 33-kDa glycoprotein are expressed on
            the surface of an activated human T cell hybridoma
  JOURNAL   J Immunol 147 (4), 1230-1237 (1991)
   PUBMED   1714477
REFERENCE   8  (bases 1 to 893)
  AUTHORS   Messer,G., Spengler,U., Jung,M.C., Honold,G., Blomer,K., Pape,G.R.,
            Riethmuller,G. and Weiss,E.H.
  TITLE     Polymorphic structure of the tumor necrosis factor (TNF) locus: an
            NcoI polymorphism in the first intron of the human TNF-beta gene
            correlates with a variant amino acid in position 26 and a reduced
            level of TNF-beta production
  JOURNAL   J Exp Med 173 (1), 209-219 (1991)
   PUBMED   1670638
REFERENCE   9  (bases 1 to 893)
  AUTHORS   Abraham,L.J., Du,D.C., Zahedi,K., Dawkins,R.L. and Whitehead,A.S.
  TITLE     Haplotypic polymorphisms of the TNFB gene
  JOURNAL   Immunogenetics 33 (1), 50-53 (1991)
   PUBMED   1671667
REFERENCE   10 (bases 1 to 893)
  AUTHORS   Nedwin,G.E., Naylor,S.L., Sakaguchi,A.Y., Smith,D.,
            Jarrett-Nedwin,J., Pennica,D., Goeddel,D.V. and Gray,P.W.
  TITLE     Human lymphotoxin and tumor necrosis factor genes: structure,
            homology and chromosomal localization
  JOURNAL   Nucleic Acids Res 13 (17), 6361-6373 (1985)
   PUBMED   2995927
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL662801.7.
            
            On Aug 10, 2019 this sequence version replaced NM_002341.1.
            
            Summary: Lymphotoxin beta is a type II membrane protein of the TNF
            family. It anchors lymphotoxin-alpha to the cell surface through
            heterotrimer formation. The predominant form on the lymphocyte
            surface is the lymphotoxin-alpha 1/beta 2 complex (e.g. 1 molecule
            alpha/2 molecules beta) and this complex is the primary ligand for
            the lymphotoxin-beta receptor. The minor complex is
            lymphotoxin-alpha 2/beta 1. LTB is an inducer of the inflammatory
            response system and involved in normal development of lymphoid
            tissue. Lymphotoxin-beta isoform b is unable to complex with
            lymphotoxin-alpha suggesting a function for lymphotoxin-beta which
            is independent of lympyhotoxin-alpha. Alternative splicing results
            in multiple transcript variants encoding different isoforms.
            [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longer
            transcript, encodes the longer isoform (a), and can form the
            heterotrimeric complex with lymphotoxin-alpha.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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 :: L11015.1, HY076296.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000429299.3/ ENSP00000410481.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-169               AL662801.7         54927-55095         c
            170-215             AL662801.7         54485-54530         c
            216-287             AL662801.7         54230-54301         c
            288-893             AL662801.7         53229-53834         c
FEATURES             Location/Qualifiers
     source          1..893
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p21.33"
     gene            1..893
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /note="lymphotoxin beta"
                     /db_xref="GeneID:4050"
                     /db_xref="HGNC:HGNC:6711"
                     /db_xref="MIM:600978"
     exon            1..169
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /inference="alignment:Splign:2.1.0"
     CDS             8..742
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /note="isoform a is encoded by transcript variant 1; tumor
                     necrosis factor C; TNF-C; LT-beta; tumor necrosis factor
                     ligand superfamily member 3; lymphotoxin beta (TNF
                     superfamily, member 3); tumor necrosis factor ligand 1C;
                     TNF superfamily member 3"
                     /codon_start=1
                     /product="lymphotoxin-beta isoform a"
                     /protein_id="NP_002332.1"
                     /db_xref="CCDS:CCDS4703.1"
                     /db_xref="GeneID:4050"
                     /db_xref="HGNC:HGNC:6711"
                     /db_xref="MIM:600978"
                     /translation="MGALGLEGRGGRLQGRGSLLLAVAGATSLVTLLLAVPITVLAVL
                     ALVPQDQGGLVTETADPGAQAQQGLGFQKLPEEEPETDLSPGLPAAHLIGAPLKGQGL
                     GWETTKEQAFLTSGTQFSDAEGLALPQDGLYYLYCLVGYRGRAPPGGGDPQGRSVTLR
                     SSLYRAGGAYGPGTPELLLEGAETVTPVLDPARRQGYGPLWYTSVGFGGLVQLRRGER
                     VYVNISHPDMVDFARGKTFFGAVMVG"
     exon            170..215
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /inference="alignment:Splign:2.1.0"
     exon            216..287
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /inference="alignment:Splign:2.1.0"
     exon            288..893
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /inference="alignment:Splign:2.1.0"
     regulatory      859..864
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /note="hexamer: AATAAA"
     polyA_site      879
                     /gene="LTB"
                     /gene_synonym="p33; TNFC; TNFSF3; TNLG1C"
                     /note="major polyA site"
ORIGIN      
        1 agtctcaatg ggggcactgg ggctggaggg caggggtggg aggctccagg ggaggggttc
       61 cctcctgcta gctgtggcag gagccacttc tctggtgacc ttgttgctgg cggtgcctat
      121 cactgtcctg gctgtgctgg ccttagtgcc ccaggatcag ggaggactgg taacggagac
      181 ggccgacccc ggggcacagg cccagcaagg actggggttt cagaagctgc cagaggagga
      241 gccagaaaca gatctcagcc ccgggctccc agctgcccac ctcataggcg ctccgctgaa
      301 ggggcagggg ctaggctggg agacgacgaa ggaacaggcg tttctgacga gcgggacgca
      361 gttctcggac gccgaggggc tggcgctccc gcaggacggc ctctattacc tctactgtct
      421 cgtcggctac cggggccggg cgccccctgg cggcggggac ccccagggcc gctcggtcac
      481 gctgcgcagc tctctgtacc gggcgggggg cgcctacggg ccgggcactc ccgagctgct
      541 gctcgagggc gccgagacgg tgactccagt gctggacccg gccaggagac aagggtacgg
      601 gcctctctgg tacacgagcg tggggttcgg cggcctggtg cagctccgga ggggcgagag
      661 ggtgtacgtc aacatcagtc accccgatat ggtggacttc gcgagaggga agaccttctt
      721 tggggccgtg atggtggggt gagggaatat gagtgcgtgg tgcgagtgcg tgaatattgg
      781 gggcccggac gcccaggacc ccatggcagt gggaaaaatg taggagactg tttggaaatt
      841 gattttgaac ctgatgaaaa taaagaatgg aaagcttcag tgctgccgat aaa
//
