LOCUS       NM_003701               2201 bp    mRNA    linear   PRI 19-AUG-2024
DEFINITION  Homo sapiens TNF superfamily member 11 (TNFSF11), transcript
            variant 1, mRNA.
ACCESSION   NM_003701
VERSION     NM_003701.4
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 2201)
  AUTHORS   Arturo,N.C., Ivan,G.J., Betsabe,C.H., Emilio,P.E., Yussef,E.G.,
            Alejandra,R.N., Tonatiuh,G.H., Alejandra,V.V., Ismael,N.A.,
            Elena,T.S., Manuel,P.J., Heriberto,J.C., Gerardo,A.E., Laura,G.L.
            and Miriam,S.A.
  TITLE     Genetic Variants of the Receptor Activator Nuclear of kappaB Ligand
            Gene Increase the Risk of Rheumatoid Arthritis in a Mexican Mestizo
            Population: A Case-Control Study
  JOURNAL   Genes (Basel) 15 (7), 907 (2024)
   PUBMED   39062686
  REMARK    GeneRIF: Genetic Variants of the Receptor Activator Nuclear of
            kappaB Ligand Gene Increase the Risk of Rheumatoid Arthritis in a
            Mexican Mestizo Population: A Case-Control Study.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2201)
  AUTHORS   Chang,R.Q., Dai,J.C., Qiu,Y.H., Liang,Y., Hu,X.Y., Li,M.Q. and
            He,F.
  TITLE     Accumulation of gammadeltaT cells in the decidua is promoted by
            RANKL which upregulates ICAM-1 via NF-kappaB
  JOURNAL   Reproduction 167 (6), e230262 (2024)
   PUBMED   38614129
  REMARK    GeneRIF: Accumulation of gammadeltaT cells in the decidua is
            promoted by RANKL which upregulates ICAM-1 via NF-kappaB.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2201)
  AUTHORS   Li,Z., Lu,W., Yin,F., Zeng,P., Li,H. and Huang,A.
  TITLE     Overexpression of TNFSF11 reduces GPX4 levels and increases
            sensitivity to ferroptosis inducers in lung adenocarcinoma
  JOURNAL   J Transl Med 22 (1), 340 (2024)
   PUBMED   38594779
  REMARK    GeneRIF: Overexpression of TNFSF11 reduces GPX4 levels and
            increases sensitivity to ferroptosis inducers in lung
            adenocarcinoma.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2201)
  AUTHORS   Takeda,T., Tsubaki,M., Genno,S., Tomita,K. and Nishida,S.
  TITLE     RANK/RANKL axis promotes migration, invasion, and metastasis of
            osteosarcoma via activating NF-kappaB pathway
  JOURNAL   Exp Cell Res 436 (2), 113978 (2024)
   PUBMED   38382805
  REMARK    GeneRIF: RANK/RANKL axis promotes migration, invasion, and
            metastasis of osteosarcoma via activating NF-kappaB pathway.
REFERENCE   5  (bases 1 to 2201)
  AUTHORS   Kulik-Rechberger,B. and Kozlowska,M.
  TITLE     Osteoprotegerin and receptor activator of the nuclear factor kappa
            B ligand (RANKL) in healthy pubertal girls - relationships with
            physical growth and classical bone turnover markers
  JOURNAL   J Physiol Pharmacol 75 (1) (2024)
   PUBMED   38583439
  REMARK    GeneRIF: Osteoprotegerin and receptor activator of the nuclear
            factor kappa B ligand (RANKL) in healthy pubertal girls -
            relationships with physical growth and classical bone turnover
            markers.
REFERENCE   6  (bases 1 to 2201)
  AUTHORS   Lacey,D.L., Timms,E., Tan,H.L., Kelley,M.J., Dunstan,C.R.,
            Burgess,T., Elliott,R., Colombero,A., Elliott,G., Scully,S.,
            Hsu,H., Sullivan,J., Hawkins,N., Davy,E., Capparelli,C., Eli,A.,
            Qian,Y.X., Kaufman,S., Sarosi,I., Shalhoub,V., Senaldi,G., Guo,J.,
            Delaney,J. and Boyle,W.J.
  TITLE     Osteoprotegerin ligand is a cytokine that regulates osteoclast
            differentiation and activation
  JOURNAL   Cell 93 (2), 165-176 (1998)
   PUBMED   9568710
REFERENCE   7  (bases 1 to 2201)
  AUTHORS   Yasuda,H., Shima,N., Nakagawa,N., Yamaguchi,K., Kinosaki,M.,
            Mochizuki,S., Tomoyasu,A., Yano,K., Goto,M., Murakami,A., Tsuda,E.,
            Morinaga,T., Higashio,K., Udagawa,N., Takahashi,N. and Suda,T.
  TITLE     Osteoclast differentiation factor is a ligand for
            osteoprotegerin/osteoclastogenesis-inhibitory factor and is
            identical to TRANCE/RANKL
  JOURNAL   Proc Natl Acad Sci U S A 95 (7), 3597-3602 (1998)
   PUBMED   9520411
REFERENCE   8  (bases 1 to 2201)
  AUTHORS   Wong,B.R., Josien,R., Lee,S.Y., Sauter,B., Li,H.L., Steinman,R.M.
            and Choi,Y.
  TITLE     TRANCE (tumor necrosis factor [TNF]-related activation-induced
            cytokine), a new TNF family member predominantly expressed in T
            cells, is a dendritic cell-specific survival factor
  JOURNAL   J Exp Med 186 (12), 2075-2080 (1997)
   PUBMED   9396779
REFERENCE   9  (bases 1 to 2201)
  AUTHORS   Anderson,D.M., Maraskovsky,E., Billingsley,W.L., Dougall,W.C.,
            Tometsko,M.E., Roux,E.R., Teepe,M.C., DuBose,R.F., Cosman,D. and
            Galibert,L.
  TITLE     A homologue of the TNF receptor and its ligand enhance T-cell
            growth and dendritic-cell function
  JOURNAL   Nature 390 (6656), 175-179 (1997)
   PUBMED   9367155
REFERENCE   10 (bases 1 to 2201)
  AUTHORS   Wong,B.R., Rho,J., Arron,J., Robinson,E., Orlinick,J., Chao,M.,
            Kalachikov,S., Cayani,E., Bartlett,F.S. 3rd, Frankel,W.N., Lee,S.Y.
            and Choi,Y.
  TITLE     TRANCE is a novel ligand of the tumor necrosis factor receptor
            family that activates c-Jun N-terminal kinase in T cells
  JOURNAL   J Biol Chem 272 (40), 25190-25194 (1997)
   PUBMED   9312132
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL139382.12, BC117286.1 and
            BQ007726.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_003701.3.
            
            Summary: This gene encodes a member of the tumor necrosis factor
            (TNF) cytokine family which is a ligand for osteoprotegerin and
            functions as a key factor for osteoclast differentiation and
            activation. This protein was shown to be a dentritic cell survival
            factor and is involved in the regulation of T cell-dependent immune
            response. T cell activation was reported to induce expression of
            this gene and lead to an increase of osteoclastogenesis and bone
            loss. This protein was shown to activate antiapoptotic kinase
            AKT/PKB through a signaling complex involving SRC kinase and tumor
            necrosis factor receptor-associated factor (TRAF) 6, which
            indicated this protein may have a role in the regulation of cell
            apoptosis. Targeted disruption of the related gene in mice led to
            severe osteopetrosis and a lack of osteoclasts. The deficient mice
            exhibited defects in early differentiation of T and B lymphocytes,
            and failed to form lobulo-alveolar mammary structures during
            pregnancy. Two alternatively spliced transcript variants have been
            found. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) encodes the longer protein
            (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 :: SRR1163657.193210.1, AF053712.2
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000398795.7/ ENSP00000381775.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 AL139382.12        125500-125502       c
            4-120               AL139382.12        125383-125499       c
            121-1217            BC117286.1         1-1097
            1218-2054           AL139382.12        91788-92624         c
            2055-2201           BQ007726.1         19-165              c
FEATURES             Location/Qualifiers
     source          1..2201
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="13"
                     /map="13q14.11"
     gene            1..2201
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /note="TNF superfamily member 11"
                     /db_xref="GeneID:8600"
                     /db_xref="HGNC:HGNC:11926"
                     /db_xref="MIM:602642"
     exon            1..371
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /inference="alignment:Splign:2.1.0"
     CDS             153..1106
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /note="isoform 1 is encoded by transcript variant 1;
                     TNF-related activation-induced cytokine; receptor
                     activator of nuclear factor kappa B ligand; osteoclast
                     differentiation factor; osteoprotegerin ligand; tumor
                     necrosis factor (ligand) superfamily, member 11; tumor
                     necrosis factor ligand 6B; tumor necrosis factor
                     superfamily member 11"
                     /codon_start=1
                     /product="tumor necrosis factor ligand superfamily member
                     11 isoform 1"
                     /protein_id="NP_003692.1"
                     /db_xref="CCDS:CCDS9384.1"
                     /db_xref="GeneID:8600"
                     /db_xref="HGNC:HGNC:11926"
                     /db_xref="MIM:602642"
                     /translation="MRRASRDYTKYLRGSEEMGGGPGAPHEGPLHAPPPPAPHQPPAA
                     SRSMFVALLGLGLGQVVCSVALFFYFRAQMDPNRISEDGTHCIYRILRLHENADFQDT
                     TLESQDTKLIPDSCRRIKQAFQGAVQKELQHIVGSQHIRAEKAMVDGSWLDLAKRSKL
                     EAQPFAHLTINATDIPSGSHKVSLSSWYHDRGWAKISNMTFSNGKLIVNQDGFYYLYA
                     NICFRHHETSGDLATEYLQLMVYVTKTSIKIPSSHTLMKGGSTKYWSGNSEFHFYSIN
                     VGGFFKLRSGEEISIEVSNPSLLDPDQDATYFGAFKVRDID"
     exon            372..539
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /inference="alignment:Splign:2.1.0"
     exon            540..585
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /inference="alignment:Splign:2.1.0"
     exon            586..684
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /inference="alignment:Splign:2.1.0"
     exon            685..2201
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2179..2184
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /note="hexamer: AATAAA"
     polyA_site      2201
                     /gene="TNFSF11"
                     /gene_synonym="CD254; hRANKL2; ODF; OPGL; OPTB2; RANKL;
                     sOdf; TNLG6B; TRANCE"
                     /note="major polyA site"
ORIGIN      
        1 gcccgctcgc ccgcgcgccc caggacccaa agccgggctc caagtcggcg ccccacgtcg
       61 aggctccgcc gcagcctccg gagttggccg cagacaagaa ggggagggag cgggagaggg
      121 aggagagctc cgaagcgaga gggccgagcg ccatgcgccg cgccagcaga gactacacca
      181 agtacctgcg tggctcggag gagatgggcg gcggccccgg agccccgcac gagggccccc
      241 tgcacgcccc gccgccgcct gcgccgcacc agccccctgc cgcctcccgc tccatgttcg
      301 tggccctcct ggggctgggg ctgggccagg ttgtctgcag cgtcgccctg ttcttctatt
      361 tcagagcgca gatggatcct aatagaatat cagaagatgg cactcactgc atttatagaa
      421 ttttgagact ccatgaaaat gcagattttc aagacacaac tctggagagt caagatacaa
      481 aattaatacc tgattcatgt aggagaatta aacaggcctt tcaaggagct gtgcaaaagg
      541 aattacaaca tatcgttgga tcacagcaca tcagagcaga gaaagcgatg gtggatggct
      601 catggttaga tctggccaag aggagcaagc ttgaagctca gccttttgct catctcacta
      661 ttaatgccac cgacatccca tctggttccc ataaagtgag tctgtcctct tggtaccatg
      721 atcggggttg ggccaagatc tccaacatga cttttagcaa tggaaaacta atagttaatc
      781 aggatggctt ttattacctg tatgccaaca tttgctttcg acatcatgaa acttcaggag
      841 acctagctac agagtatctt caactaatgg tgtacgtcac taaaaccagc atcaaaatcc
      901 caagttctca taccctgatg aaaggaggaa gcaccaagta ttggtcaggg aattctgaat
      961 tccattttta ttccataaac gttggtggat tttttaagtt acggtctgga gaggaaatca
     1021 gcatcgaggt ctccaacccc tccttactgg atccggatca ggatgcaaca tactttgggg
     1081 cttttaaagt tcgagatata gattgagccc cagtttttgg agtgttatgt atttcctgga
     1141 tgtttggaaa cattttttaa aacaagccaa gaaagatgta tataggtgtg tgagactact
     1201 aagaggcatg gccccaacgg tacacgactc agtatccatg ctcttgacct tgtagagaac
     1261 acgcgtattt acagccagtg ggagatgtta gactcatggt gtgttacaca atggttttta
     1321 aattttgtaa tgaattccta gaattaaacc agattggagc aattacgggg tgaccttatg
     1381 agaaactgca tgtgggctat gggaggggtt ggtccctggt catgtgcccc ttcgcagctg
     1441 aagtggagag ggtgtcatct agcgcaattg aaggatcatc tgaaggggca aattcttttg
     1501 aattgttaca tcatgctgga acctgcaaaa aatacttttt ctaatgagga gagaaaatat
     1561 atgtattttt atataatatc taaagttata tttcagatgt aatgttttct ttgcaaagta
     1621 ttgtaaatta tatttgtgct atagtatttg attcaaaata tttaaaaatg tcttgctgtt
     1681 gacatattta atgttttaaa tgtacagaca tatttaactg gtgcactttg taaattccct
     1741 ggggaaaact tgcagctaag gaggggaaaa aaatgttgtt tcctaatatc aaatgcagta
     1801 tatttcttcg ttctttttaa gttaatagat tttttcagac ttgtcaagcc tgtgcaaaaa
     1861 aattaaaatg gatgccttga ataataagca ggatgttggc caccaggtgc ctttcaaatt
     1921 tagaaactaa ttgactttag aaagctgaca ttgccaaaaa ggatacataa tgggccactg
     1981 aaatctgtca agagtagtta tataattgtt gaacaggtgt ttttccacaa gtgccgcaaa
     2041 ttgtaccttt tttgtttttt caaaatagaa aagttattag tggtttatca gcaaaaaagt
     2101 ccaattttaa tttagtaaat gttatcttat actgtacaat aaaaacattg cctttgaatg
     2161 ttaatttttt ggtacaaaaa taaatttata tgaaaacctg c
//
