2024-04-20 14:54:31, GGRNA : RefSeq release 60 (20130726)
LOCUS NM_002546 2354 bp mRNA linear PRI 07-JUL-2013 DEFINITION Homo sapiens tumor necrosis factor receptor superfamily, member 11b (TNFRSF11B), mRNA. ACCESSION NM_002546 VERSION NM_002546.3 GI:148743792 KEYWORDS RefSeq. 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 2354) AUTHORS Cody,J.J., Rivera,A.A., Lyons,G.R., Yang,S.W., Wang,M., Ashley,J.W., Meleth,S., Feng,X., Siegal,G.P. and Douglas,J.T. TITLE Expression of osteoprotegerin from a replicating adenovirus inhibits the progression of prostate cancer bone metastases in a murine model JOURNAL Lab. Invest. 93 (3), 268-278 (2013) PUBMED 23358109 REMARK GeneRIF: Expression of osteoprotegerin from a replicating adenovirus inhibits the progression of prostate cancer bone metastases in a murine model. REFERENCE 2 (bases 1 to 2354) AUTHORS Hartwich,J.E., Orr,W.S., Ng,C.Y., Spence,Y., McLaughlin,J.M., Furman,W.L., McGregor,L.M. and Davidoff,A.M. TITLE Rapamycin increases neuroblastoma xenograft and host stromal derived osteoprotegerin inhibiting osteolytic bone disease in a bone metastasis model JOURNAL J. Pediatr. Surg. 48 (1), 47-55 (2013) PUBMED 23331792 REMARK GeneRIF: In a xenograft model, increased osteoprotegerin expression correlated with a delay to pathologic fracture suggesting a potential role for mTOR inhibitors in the treatment of neuroblastoma bone metastases. REFERENCE 3 (bases 1 to 2354) AUTHORS Paternoster,L., Lorentzon,M., Lehtimaki,T., Eriksson,J., Kahonen,M., Raitakari,O., Laaksonen,M., Sievanen,H., Viikari,J., Lyytikainen,L.P., Mellstrom,D., Karlsson,M., Ljunggren,O., Grundberg,E., Kemp,J.P., Sayers,A., Nethander,M., Evans,D.M., Vandenput,L., Tobias,J.H. and Ohlsson,C. TITLE Genetic determinants of trabecular and cortical volumetric bone mineral densities and bone microstructure JOURNAL PLoS Genet. 9 (2), E1003247 (2013) PUBMED 23437003 REFERENCE 4 (bases 1 to 2354) AUTHORS Ney,J.T., Juhasz-Boess,I., Gruenhage,F., Graeber,S., Bohle,R.M., Pfreundschuh,M., Solomayer,E.F. and Assmann,G. TITLE Genetic polymorphism of the OPG gene associated with breast cancer JOURNAL BMC Cancer 13, 40 (2013) PUBMED 23369128 REMARK GeneRIF: Report a significant association of OPG SNP rs3102735 with the susceptibility to develop breast cancer in the Caucasian population. Publication Status: Online-Only REFERENCE 5 (bases 1 to 2354) AUTHORS Kadkhodazadeh,M., Tabari,Z.A., Ardakani,M.R., Ebadian,A.R. and Brook,A. TITLE Analysis of osteoprotegerin (OPG) gene polymorphism in Iranian patients with chronic periodontitis and peri-implantitis. A cross-sectional study JOURNAL Eur J Oral Implantol 5 (4), 381-388 (2012) PUBMED 23304691 REMARK GeneRIF: a single nucleotide polymorphism at G1181C is associated with the presence of peri-implantitis REFERENCE 6 (bases 1 to 2354) AUTHORS Tomoyasu,A., Goto,M., Fujise,N., Mochizuki,S., Yasuda,H., Morinaga,T., Tsuda,E. and Higashio,K. TITLE Characterization of monomeric and homodimeric forms of osteoclastogenesis inhibitory factor JOURNAL Biochem. Biophys. Res. Commun. 245 (2), 382-387 (1998) PUBMED 9571159 REFERENCE 7 (bases 1 to 2354) AUTHORS Yamaguchi,K., Kinosaki,M., Goto,M., Kobayashi,F., Tsuda,E., Morinaga,T. and Higashio,K. TITLE Characterization of structural domains of human osteoclastogenesis inhibitory factor JOURNAL J. Biol. Chem. 273 (9), 5117-5123 (1998) PUBMED 9478964 REFERENCE 8 (bases 1 to 2354) AUTHORS Tan,K.B., Harrop,J., Reddy,M., Young,P., Terrett,J., Emery,J., Moore,G. and Truneh,A. TITLE Characterization of a novel TNF-like ligand and recently described TNF ligand and TNF receptor superfamily genes and their constitutive and inducible expression in hematopoietic and non-hematopoietic cells JOURNAL Gene 204 (1-2), 35-46 (1997) PUBMED 9434163 REFERENCE 9 (bases 1 to 2354) AUTHORS Tsuda,E., Goto,M., Mochizuki,S., Yano,K., Kobayashi,F., Morinaga,T. and Higashio,K. TITLE Isolation of a novel cytokine from human fibroblasts that specifically inhibits osteoclastogenesis JOURNAL Biochem. Biophys. Res. Commun. 234 (1), 137-142 (1997) PUBMED 9168977 REFERENCE 10 (bases 1 to 2354) AUTHORS Simonet,W.S., Lacey,D.L., Dunstan,C.R., Kelley,M., Chang,M.S., Luthy,R., Nguyen,H.Q., Wooden,S., Bennett,L., Boone,T., Shimamoto,G., DeRose,M., Elliott,R., Colombero,A., Tan,H.L., Trail,G., Sullivan,J., Davy,E., Bucay,N., Renshaw-Gegg,L., Hughes,T.M., Hill,D., Pattison,W., Campbell,P., Sander,S., Van,G., Tarpley,J., Derby,P., Lee,R. and Boyle,W.J. TITLE Osteoprotegerin: a novel secreted protein involved in the regulation of bone density JOURNAL Cell 89 (2), 309-319 (1997) PUBMED 9108485 COMMENT REVIEWED REFSEQ: This record has been curated by NCBI staff. The reference sequence was derived from DA477521.1, AK223155.1 and CK903484.1. This sequence is a reference standard in the RefSeqGene project. On Jun 8, 2007 this sequence version replaced gi:22547122. Summary: The protein encoded by this gene is a member of the TNF-receptor superfamily. This protein is an osteoblast-secreted decoy receptor that functions as a negative regulator of bone resorption. This protein specifically binds to its ligand, osteoprotegerin ligand, both of which are key extracellular regulators of osteoclast development. Studies of the mouse counterpart also suggest that this protein and its ligand play a role in lymph-node organogenesis and vascular calcification. Alternatively spliced transcript variants of this gene have been reported, but their full length nature has not been determined. [provided by RefSeq, Jul 2008]. 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 :: AK223155.1, BC030155.2 [ECO:0000332] RNAseq introns :: single sample supports all introns ERS025084 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## CDS uses downstream in-frame AUG :: downstream AUG is associated with N-terminal localization signal (PMID:9571159) ##RefSeq-Attributes-END## COMPLETENESS: full length. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-579 DA477521.1 1-579 580-2315 AK223155.1 319-2054 2316-2354 CK903484.1 1-39 c FEATURES Location/Qualifiers source 1..2354 /organism="Homo sapiens" /mol_type="mRNA" /db_xref="taxon:9606" /chromosome="8" /map="8q24" gene 1..2354 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="tumor necrosis factor receptor superfamily, member 11b" /db_xref="GeneID:4982" /db_xref="HGNC:11909" /db_xref="MIM:602643" exon 1..353 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /inference="alignment:Splign:1.39.8" variation 26 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="c" /db_xref="dbSNP:11575930" variation 40 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="t" /db_xref="dbSNP:11575929" variation 101 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="t" /db_xref="dbSNP:2073617" variation 124 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="c" /db_xref="dbSNP:11573807" misc_feature 192..194 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="upstream in-frame stop codon" misc_feature 257 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="major transcription initiation site" variation 292 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="c" /db_xref="dbSNP:1050927" CDS 324..1529 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="osteoprotegerin; osteoclastogenesis inhibitory factor" /codon_start=1 /product="tumor necrosis factor receptor superfamily member 11B precursor" /protein_id="NP_002537.3" /db_xref="GI:148743793" /db_xref="CCDS:CCDS6326.1" /db_xref="GeneID:4982" /db_xref="HGNC:11909" /db_xref="MIM:602643" /translation="
MNNLLCCALVFLDISIKWTTQETFPPKYLHYDEETSHQLLCDKCPPGTYLKQHCTAKWKTVCAPCPDHYYTDSWHTSDECLYCSPVCKELQYVKQECNRTHNRVCECKEGRYLEIEFCLKHRSCPPGFGVVQAGTPERNTVCKRCPDGFFSNETSSKAPCRKHTNCSVFGLLLTQKGNATHDNICSGNSESTQKCGIDVTLCEEAFFRFAVPTKFTPNWLSVLVDNLPGTKVNAESVERIKRQHSSQEQTFQLLKLWKHQNKDQDIVKKIIQDIDLCENSVQRHIGHANLTFEQLRSLMESLPGKKVGAEDIEKTIKACKPSDQILKLLSLWRIKNGDQDTLKGLMHALKHSKTYHFPKTVTQSLKKTIRFLHSFTMYKLYQKLFLEMIGNQVQSVKISCL
" sig_peptide 324..386 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /inference="COORDINATES: ab initio prediction:SignalP:4.0" mat_peptide 387..1526 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /product="tumor necrosis factor receptor superfamily member 11B" misc_feature 393..509 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /experiment="experimental evidence, no additional details recorded" /note="propagated from UniProtKB/Swiss-Prot (O00300.3); Region: TNFR-Cys 1" misc_feature 405..695 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="Tumor necrosis factor receptor (TNFR) domain; superfamily of TNF-like receptor domains. When bound to TNF-like cytokines, TNFRs trigger multiple signal transduction pathways, they are involved in inflammation response, apoptosis, autoimmunity and...; Region: TNFR; cd00185" /db_xref="CDD:29147" misc_feature order(405..410,531..533,564..566,594..596,675..677) /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="antiparallel homodimerization interface [polypeptide binding]; other site" /db_xref="CDD:29147" misc_feature order(417..419,447..449,459..461,465..467,504..506, 513..515,543..545) /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="parallel homodimerization interface [polypeptide binding]; other site" /db_xref="CDD:29147" misc_feature order(447..476,501..515,615..623) /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="protein binding site [polypeptide binding]; other site" /db_xref="CDD:29147" misc_feature 516..638 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /experiment="experimental evidence, no additional details recorded" /note="propagated from UniProtKB/Swiss-Prot (O00300.3); Region: TNFR-Cys 2" misc_feature order(540..545,561..569) /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="50's loop TNF binding site; other site" /db_xref="CDD:29147" misc_feature 642..749 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /experiment="experimental evidence, no additional details recorded" /note="propagated from UniProtKB/Swiss-Prot (O00300.3); Region: TNFR-Cys 3" misc_feature 693..>878 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="Tumor necrosis factor receptor (TNFR) domain; superfamily of TNF-like receptor domains. When bound to TNF-like cytokines, TNFRs trigger multiple signal transduction pathways, they are involved in inflammation response, apoptosis, autoimmunity and...; Region: TNFR; cl12111" /db_xref="CDD:209448" misc_feature order(693..716,741..755,855..863) /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="protein binding site [polypeptide binding]; other site" /db_xref="CDD:29147" misc_feature order(699..701,705..707,744..746,753..755,783..785) /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="parallel homodimerization interface [polypeptide binding]; other site" /db_xref="CDD:29147" misc_feature 756..878 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /experiment="experimental evidence, no additional details recorded" /note="propagated from UniProtKB/Swiss-Prot (O00300.3); Region: TNFR-Cys 4" misc_feature order(780..785,801..809) /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="50's loop TNF binding site; other site" /db_xref="CDD:29147" misc_feature 1200..1418 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /note="Death domain; Region: Death; pfam00531" /db_xref="CDD:201284" misc_feature 1521..1523 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /experiment="experimental evidence, no additional details recorded" /note="Involved in dimerization; propagated from UniProtKB/Swiss-Prot (O00300.3); other site" variation 332 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="g" /db_xref="dbSNP:2073618" exon 354..723 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /inference="alignment:Splign:1.39.8" variation 633 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="g" /db_xref="dbSNP:11573906" exon 724..915 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /inference="alignment:Splign:1.39.8" variation 881 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="t" /db_xref="dbSNP:11573923" exon 916..1140 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /inference="alignment:Splign:1.39.8" variation 1037 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="g" /db_xref="dbSNP:11573930" variation 1091 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="g" /db_xref="dbSNP:2228568" variation 1106 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="c" /replace="g" /db_xref="dbSNP:61761330" variation 1111 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="c" /db_xref="dbSNP:1131380" exon 1141..2346 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /inference="alignment:Splign:1.39.8" STS 1185..1508 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /standard_name="PMC153764P1" /db_xref="UniSTS:271270" variation 1208 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="t" /db_xref="dbSNP:11573942" variation 1316 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="g" /replace="t" /db_xref="dbSNP:1804853" variation 1473 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="t" /db_xref="dbSNP:1804854" STS 1520..1654 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /standard_name="RH93303" /db_xref="UniSTS:87881" variation 1551 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="t" /db_xref="dbSNP:11573943" variation 1596 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="t" /db_xref="dbSNP:11573944" variation 1825 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="g" /replace="t" /db_xref="dbSNP:3094021" variation 1901 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="c" /db_xref="dbSNP:11573945" variation 1986 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="g" /replace="t" /db_xref="dbSNP:3094022" variation 2056 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="g" /db_xref="dbSNP:11573946" variation 2074 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="c" /replace="t" /db_xref="dbSNP:11573947" variation 2241 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" /replace="a" /replace="g" /db_xref="dbSNP:11573948" polyA_signal 2322..2327 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" polyA_site 2346 /gene="TNFRSF11B" /gene_synonym="OCIF; OPG; TR1" ORIGIN
tttttttcccctgctctcccaggggccagacaccaccgccccacccctcacgccccacctccctgggggatcctttccgccccagccctgaaagcgttaaccctggagctttctgcacaccccccgaccgctcccgcccaagcttcctaaaaaagaaaggtgcaaagtttggtccaggatagaaaaatgactgatcaaaggcaggcgatacttcctgttgccgggacgctatatataacgtgatgagcgcacgggctgcggagacgcaccggagcgctcgcccagccgccgcctccaagcccctgaggtttccggggaccacaatgaacaacttgctgtgctgcgcgctcgtgtttctggacatctccattaagtggaccacccaggaaacgtttcctccaaagtaccttcattatgacgaagaaacctctcatcagctgttgtgtgacaaatgtcctcctggtacctacctaaaacaacactgtacagcaaagtggaagaccgtgtgcgccccttgccctgaccactactacacagacagctggcacaccagtgacgagtgtctatactgcagccccgtgtgcaaggagctgcagtacgtcaagcaggagtgcaatcgcacccacaaccgcgtgtgcgaatgcaaggaagggcgctaccttgagatagagttctgcttgaaacataggagctgccctcctggatttggagtggtgcaagctggaaccccagagcgaaatacagtttgcaaaagatgtccagatgggttcttctcaaatgagacgtcatctaaagcaccctgtagaaaacacacaaattgcagtgtctttggtctcctgctaactcagaaaggaaatgcaacacacgacaacatatgttccggaaacagtgaatcaactcaaaaatgtggaatagatgttaccctgtgtgaggaggcattcttcaggtttgctgttcctacaaagtttacgcctaactggcttagtgtcttggtagacaatttgcctggcaccaaagtaaacgcagagagtgtagagaggataaaacggcaacacagctcacaagaacagactttccagctgctgaagttatggaaacatcaaaacaaagaccaagatatagtcaagaagatcatccaagatattgacctctgtgaaaacagcgtgcagcggcacattggacatgctaacctcaccttcgagcagcttcgtagcttgatggaaagcttaccgggaaagaaagtgggagcagaagacattgaaaaaacaataaaggcatgcaaacccagtgaccagatcctgaagctgctcagtttgtggcgaataaaaaatggcgaccaagacaccttgaagggcctaatgcacgcactaaagcactcaaagacgtaccactttcccaaaactgtcactcagagtctaaagaagaccatcaggttccttcacagcttcacaatgtacaaattgtatcagaagttatttttagaaatgataggtaaccaggtccaatcagtaaaaataagctgcttataactggaaatggccattgagctgtttcctcacaattggcgagatcccatggatgagtaaactgtttctcaggcacttgaggctttcagtgatatctttctcattaccagtgactaattttgccacagggtactaaaagaaactatgatgtggagaaaggactaacatctcctccaataaaccccaaatggttaatccaactgtcagatctggatcgttatctactgactatattttcccttattactgcttgcagtaattcaactggaaattaaaaaaaaaaaactagactccattgtgccttactaaatatgggaatgtctaacttaaatagctttgagatttcagctatgctagaggcttttattagaaagccatatttttttctgtaaaagttactaatatatctgtaacactattacagtattgctatttatattcattcagatataagatttgtacatattatcatcctataaagaaacggtatgacttaattttagaaagaaaattatattctgtttattatgacaaatgaaagagaaaatatatatttttaatggaaagtttgtagcatttttctaataggtactgccatatttttctgtgtggagtatttttataattttatctgtataagctgtaatatcattttatagaaaatgcattatttagtcaattgtttaatgttggaaaacatatgaaatataaattatctgaatattagatgctctgagaaattgaatgtaccttatttaaaagattttatggttttataactatataaatgacattattaaagttttcaaattattttttaaaaaaaaa
//
ANNOTATIONS from NCBI Entrez Gene (20130726): GeneID:4982 -> Molecular function: GO:0004872 [receptor activity] evidence: TAS GeneID:4982 -> Molecular function: GO:0005125 [cytokine activity] evidence: TAS GeneID:4982 -> Biological process: GO:0001501 [skeletal system development] evidence: TAS GeneID:4982 -> Biological process: GO:0006915 [apoptotic process] evidence: IEA GeneID:4982 -> Biological process: GO:0007165 [signal transduction] evidence: IEA GeneID:4982 -> Biological process: GO:0007584 [response to nutrient] evidence: IEA GeneID:4982 -> Biological process: GO:0030198 [extracellular matrix organization] evidence: IEA GeneID:4982 -> Biological process: GO:0032026 [response to magnesium ion] evidence: IEA GeneID:4982 -> Biological process: GO:0042489 [negative regulation of odontogenesis of dentin-containing tooth] evidence: IEA GeneID:4982 -> Biological process: GO:0042493 [response to drug] evidence: IEA GeneID:4982 -> Biological process: GO:0043627 [response to estrogen stimulus] evidence: IEA GeneID:4982 -> Biological process: GO:0045779 [negative regulation of bone resorption] evidence: IEA GeneID:4982 -> Biological process: GO:0046685 [response to arsenic-containing substance] evidence: IEA GeneID:4982 -> Cellular component: GO:0005576 [extracellular region] evidence: TAS GeneID:4982 -> Cellular component: GO:0005578 [proteinaceous extracellular matrix] evidence: IEA GeneID:4982 -> Cellular component: GO:0005615 [extracellular space] evidence: IDA
by
@meso_cacase at
DBCLS
This page is licensed under a Creative Commons Attribution 2.1 Japan License.