TNFSF11 (TNF superfamily member 11) - Rat Genome Database

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Gene: TNFSF11 (TNF superfamily member 11) Sus scrofa
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Symbol: TNFSF11
Name: TNF superfamily member 11
RGD ID: 13879209
Description: ENCODES a protein that exhibits cytokine activity (inferred); identical protein binding (inferred); tumor necrosis factor receptor binding (inferred); INVOLVED IN animal organ morphogenesis (ortholog); bone development (ortholog); bone resorption (ortholog); PARTICIPATES IN interleukin-6 signaling pathway; ASSOCIATED WITH Alveolar Bone Loss (ortholog); autosomal recessive osteopetrosis 2 (ortholog); B-Cell Chronic Lymphocytic Leukemia (ortholog); FOUND IN extracellular region (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: RANKL; soluble RANKL; tumor necrosis factor ligand superfamily member 11; tumor necrosis factor superfamily member 11
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1124,468,110 - 24,505,477 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11124,468,011 - 24,505,421 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21125,117,332 - 25,154,855 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ morphogenesis  (IEA,ISO)
bone development  (IEA,ISO)
bone resorption  (IEA,ISO)
calcium ion homeostasis  (IEA,ISO)
calcium-mediated signaling  (IEA)
cellular response to leukemia inhibitory factor  (IEA,ISO)
cytokine-mediated signaling pathway  (IEA)
ERK1 and ERK2 cascade  (IEA)
I-kappaB kinase/NF-kappaB signaling  (IEA,ISO)
immune response  (IEA)
JNK cascade  (IEA,ISO)
mammary gland alveolus development  (IEA,ISO)
mammary gland epithelial cell proliferation  (IEA,ISO)
monocyte chemotaxis  (IEA)
negative regulation of transcription by RNA polymerase II  (IEA)
ossification  (IEA,ISO)
osteoclast development  (IEA,ISO)
osteoclast differentiation  (IEA,ISO)
osteoclast proliferation  (IEA,ISO)
paracrine signaling  (IEA,ISO)
positive regulation of bone resorption  (IEA,ISO)
positive regulation of corticotropin-releasing hormone secretion  (IEA)
positive regulation of DNA-binding transcription factor activity  (IEA)
positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling  (IEA)
positive regulation of fever generation by positive regulation of prostaglandin secretion  (IEA)
positive regulation of gene expression  (IEA,ISO)
positive regulation of homotypic cell-cell adhesion  (IEA)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (IEA,ISO)
positive regulation of intracellular signal transduction  (IEA)
positive regulation of JNK cascade  (IEA,ISO)
positive regulation of MAP kinase activity  (IEA)
positive regulation of NF-kappaB transcription factor activity  (IEA)
positive regulation of osteoclast development  (IEA,ISO)
positive regulation of osteoclast differentiation  (IEA,ISO)
positive regulation of phosphorylation  (IEA)
positive regulation of protein kinase B signaling  (IEA,ISO)
positive regulation of T cell activation  (IEA)
positive regulation of transcription by RNA polymerase II  (IEA)
protein kinase B signaling  (IEA,ISO)
regulation of actin binding  (IEA,ISO)
regulation of osteoclast differentiation  (IEA,ISO)
response to ethanol  (ISO)
response to immobilization stress  (ISO)
response to radiation  (ISO)
TNFSF11-mediated signaling pathway  (IEA,ISO)
tooth eruption  (IEA,ISO)
tumor necrosis factor-mediated signaling pathway  (IEA)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:19473572   PMID:21157918  


Genomics

Comparative Map Data
TNFSF11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1124,468,110 - 24,505,477 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11124,468,011 - 24,505,421 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21125,117,332 - 25,154,855 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNFSF11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381342,562,736 - 42,608,013 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1342,562,736 - 42,608,013 (+)EnsemblGRCh38hg38GRCh38
GRCh371343,136,872 - 43,182,149 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361342,043,795 - 42,080,148 (+)NCBINCBI36Build 36hg18NCBI36
Build 341342,043,794 - 42,080,148NCBI
Celera1324,194,611 - 24,239,896 (+)NCBICelera
Cytogenetic Map13q14.11NCBI
HuRef1323,940,423 - 23,985,716 (+)NCBIHuRef
CHM1_11343,104,338 - 43,149,624 (+)NCBICHM1_1
T2T-CHM13v2.01341,782,656 - 41,827,951 (+)NCBIT2T-CHM13v2.0
Tnfsf11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391478,514,886 - 78,545,483 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1478,514,885 - 78,545,483 (-)EnsemblGRCm39 Ensembl
GRCm381478,277,446 - 78,308,043 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1478,277,445 - 78,308,043 (-)EnsemblGRCm38mm10GRCm38
MGSCv371478,677,253 - 78,707,850 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361477,009,005 - 77,042,170 (-)NCBIMGSCv36mm8
Celera1475,790,488 - 75,821,164 (-)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1441.26NCBI
Tnfsf11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21553,674,990 - 53,705,171 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1553,673,877 - 53,705,445 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1557,808,333 - 57,838,504 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01558,926,702 - 58,956,875 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01555,751,584 - 55,781,751 (-)NCBIRnor_WKY
Rnor_6.01560,482,527 - 60,512,704 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1560,482,527 - 60,512,704 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01565,726,538 - 65,757,935 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01564,155,680 - 64,186,116 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41559,397,837 - 59,428,014 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11559,413,616 - 59,443,794 (-)NCBI
Celera1553,271,197 - 53,300,935 (-)NCBICelera
Cytogenetic Map15q11NCBI
Tnfsf11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955518430,642 - 462,705 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955518431,401 - 462,063 (+)NCBIChiLan1.0ChiLan1.0
TNFSF11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Mhudiblu_PPA_v01323,750,835 - 23,784,740 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TNFSF11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1228,226,931 - 8,257,926 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl228,227,555 - 8,258,645 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha228,218,782 - 8,249,783 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0228,445,691 - 8,476,717 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl228,446,327 - 8,477,037 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1228,136,967 - 8,174,247 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0228,193,944 - 8,224,951 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0228,205,225 - 8,236,245 (-)NCBIUU_Cfam_GSD_1.0
Tnfsf11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945152,785,812 - 152,819,281 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367471,255,803 - 1,288,252 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFSF11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1320,717,884 - 20,761,520 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl320,727,592 - 20,760,408 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605723,446,636 - 23,492,542 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfsf11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474812,527,478 - 12,555,405 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474812,527,221 - 12,555,551 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system hemolymphoid system nervous system respiratory system
High
Medium 2 2
Low 6 3 3
Below cutoff 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000010336   ⟹   ENSSSCP00000010068
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1124,466,586 - 24,505,422 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000094314   ⟹   ENSSSCP00000078476
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1124,468,110 - 24,505,477 (-)Ensembl
RefSeq Acc Id: XM_001925694   ⟹   XP_001925729
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11124,468,011 - 24,505,421 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_001925729 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAU04778 (Get FASTA)   NCBI Sequence Viewer  
  ABF81680 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_001925729   ⟸   XM_001925694
- UniProtKB: F1RJX1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000010068   ⟸   ENSSSCT00000010336
RefSeq Acc Id: ENSSSCP00000078476   ⟸   ENSSSCT00000094314
Protein Domains
TNF_2


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000009429 Ensembl, UniProtKB/TrEMBL
  ENSSSCG00000052062 Ensembl, ENTREZGENE
  ENSSSCG00025048604 UniProtKB/TrEMBL
  ENSSSCG00030036120 UniProtKB/TrEMBL
  ENSSSCG00035036161 UniProtKB/TrEMBL
  ENSSSCG00040076118 UniProtKB/TrEMBL
  ENSSSCG00050018691 UniProtKB/TrEMBL
  ENSSSCG00055002352 UniProtKB/TrEMBL
  ENSSSCG00065049265 UniProtKB/TrEMBL
  ENSSSCG00070024119 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000010068.3 UniProtKB/TrEMBL
  ENSSSCP00000078476 ENTREZGENE
  ENSSSCP00025028283.1 UniProtKB/TrEMBL
  ENSSSCP00030022834.1 UniProtKB/TrEMBL
  ENSSSCP00035019170.1 UniProtKB/TrEMBL
  ENSSSCP00040048599.1 UniProtKB/TrEMBL
  ENSSSCP00050010535.1 UniProtKB/TrEMBL
  ENSSSCP00055003431.1 UniProtKB/TrEMBL
  ENSSSCP00065029332.1 UniProtKB/TrEMBL
  ENSSSCP00070040654.1 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000010336.4 UniProtKB/TrEMBL
  ENSSSCT00000094314 ENTREZGENE
  ENSSSCT00025066207.1 UniProtKB/TrEMBL
  ENSSSCT00030050214.1 UniProtKB/TrEMBL
  ENSSSCT00035047927.1 UniProtKB/TrEMBL
  ENSSSCT00040105907.1 UniProtKB/TrEMBL
  ENSSSCT00050025313.1 UniProtKB/TrEMBL
  ENSSSCT00055004453.1 UniProtKB/TrEMBL
  ENSSSCT00065067458.1 UniProtKB/TrEMBL
  ENSSSCT00070048159.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.40 UniProtKB/TrEMBL
InterPro TNF_dom UniProtKB/TrEMBL
  TNF_ligand_10/11 UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/TrEMBL
KEGG Report ssc:100037976 UniProtKB/TrEMBL
NCBI Gene TNFSF11 ENTREZGENE
Pfam TNF UniProtKB/TrEMBL
PIRSF TNF10_TNF11 UniProtKB/TrEMBL
PROSITE TNF_2 UniProtKB/TrEMBL
SMART TNF UniProtKB/TrEMBL
Superfamily-SCOP SSF49842 UniProtKB/TrEMBL
UniProt A0A4X1VGW4_PIG UniProtKB/TrEMBL
  F1RJX1 ENTREZGENE, UniProtKB/TrEMBL