TNFSF11 Gene (Protein Coding)

TNF Superfamily Member 11

GC13P042562
GIFtS:
48
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... See more...

Aliases for TNFSF11 Gene

Aliases for TNFSF11 Gene

  • TNF Superfamily Member 11 2 3 5
  • TRANCE 2 3 4
  • RANKL 2 3 4
  • OPGL 2 3 4
  • ODF 2 3 4
  • Tumor Necrosis Factor (Ligand) Superfamily, Member 11 2 3
  • Tumor Necrosis Factor Ligand Superfamily Member 11 3 4
  • TNF-Related Activation-Induced Cytokine 3 4
  • Osteoclast Differentiation Factor 3 4
  • Osteoprotegerin Ligand 3 4
  • CD254 2 3
  • Receptor Activator Of Nuclear Factor Kappa B Ligand 3
  • Receptor Activator Of Nuclear Factor Kappa-B Ligand 4
  • Tumor Necrosis Factor Superfamily Member 11 3
  • Tumor Necrosis Factor Ligand 6B 3
  • CD254 Antigen 4
  • HRANKL2 3
  • TNFSF11 5
  • TNLG6B 3
  • OPTB2 3
  • SOdf 3

External Ids for TNFSF11 Gene

Previous GeneCards Identifiers for TNFSF11 Gene

  • GC13P041146
  • GC13P037132
  • GC13P042073
  • GC13P040934
  • GC13P040943
  • GC13P042034
  • GC13P043136
  • GC13P023940

Summaries for TNFSF11 Gene

Entrez Gene Summary for TNFSF11 Gene

  • 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]

GeneCards Summary for TNFSF11 Gene

TNFSF11 (TNF Superfamily Member 11) is a Protein Coding gene. Diseases associated with TNFSF11 include Osteopetrosis, Autosomal Recessive 2 and Autosomal Recessive Malignant Osteopetrosis. Among its related pathways are IL-6 signaling pathway and Rheumatoid arthritis. Gene Ontology (GO) annotations related to this gene include cytokine activity and tumor necrosis factor receptor superfamily binding. An important paralog of this gene is TNFSF10.

UniProtKB/Swiss-Prot Summary for TNFSF11 Gene

  • Cytokine that binds to TNFRSF11B/OPG and to TNFRSF11A/RANK. Osteoclast differentiation and activation factor. Augments the ability of dendritic cells to stimulate naive T-cell proliferation. May be an important regulator of interactions between T-cells and dendritic cells and may play a role in the regulation of the T-cell-dependent immune response. May also play an important role in enhanced bone-resorption in humoral hypercalcemia of malignancy (PubMed:22664871). Induces osteoclastogenesis by activating multiple signaling pathways in osteoclast precursor cells, chief among which is induction of long lasting oscillations in the intracellular concentration of Ca (2+) resulting in the activation of NFATC1, which translocates to the nucleus and induces osteoclast-specific gene transcription to allow differentiation of osteoclasts. During osteoclast differentiation, in a TMEM64 and ATP2A2-dependent manner induces activation of CREB1 and mitochondrial ROS generation necessary for proper osteoclast generation (By similarity).

Gene Wiki entry for TNFSF11 Gene

Additional gene information for TNFSF11 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TNFSF11 Gene

Genomics for TNFSF11 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for TNFSF11 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH13J042573 Promoter/Enhancer 1.6 EPDnew FANTOM5 Ensembl ENCODE 250.4 +12.0 11965 1.8 BCLAF1 BCL11A SIN3A IRF4 EBF1 TAF1 BHLHE40 IKZF1 RB1 NR2F1 TNFSF11 RF00017-1280 FAM216B
GH13J042561 Enhancer 0.4 Ensembl 250.7 -0.8 -835 1.4 EBF1 SPI1 ZKSCAN1 TNFSF11 piR-33422-104 piR-58297-129 piR-50129-055 AKAP11
GH13J042405 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 17.6 -156.6 -156628 1.6 SP1 ZNF207 POLR2A BCL11A TRIM22 SMC3 IRF4 EBF1 CBFB MAX TNFSF11 AKAP11 lnc-VWA8-7 piR-46002-146 LINC02341
GH13J042354 Enhancer 1.2 FANTOM5 Ensembl ENCODE dbSUPER 16.6 -207.6 -207635 3.8 BCLAF1 POLR2A ZIC2 CTCF IRF4 SMC3 MAX TAF1 BATF STAT5A TNFSF11 AKAP11 DGKH VWA8 HSALNG0096663 FABP3P2 LINC02341
GH13J042524 Enhancer 1 FANTOM5 Ensembl ENCODE 16.9 -37.6 -37611 1.7 ATF3 YY1 FOXA2 RXRA ZBTB33 EBF1 JUND HNF4A IKZF1 FOXA1 TNFSF11 AKAP11 DGKH piR-31534-157 piR-61580-147
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TNFSF11 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TNFSF11

Top Transcription factor binding sites by QIAGEN in the TNFSF11 gene promoter:
  • FOXO4
  • STAT1
  • STAT1alpha
  • STAT1beta
  • STAT3

Genomic Locations for TNFSF11 Gene

Latest Assembly
chr13:42,562,736-42,608,013
(GRCh38/hg38)
Size:
45,278 bases
Orientation:
Plus strand

Previous Assembly
chr13:43,136,872-43,182,149
(GRCh37/hg19 by Entrez Gene)
Size:
45,278 bases
Orientation:
Plus strand

chr13:43,136,872-43,182,149
(GRCh37/hg19 by Ensembl)
Size:
45,278 bases
Orientation:
Plus strand

Genomic View for TNFSF11 Gene

Genes around TNFSF11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TNFSF11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TNFSF11 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for TNFSF11 Gene

Proteins for TNFSF11 Gene

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  • Protein details for TNFSF11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14788-TNF11_HUMAN
    Recommended name:
    Tumor necrosis factor ligand superfamily member 11
    Protein Accession:
    O14788
    Secondary Accessions:
    • O14723
    • Q96Q17
    • Q9P2Q3

    Protein attributes for TNFSF11 Gene

    Size:
    317 amino acids
    Molecular mass:
    35478 Da
    Quaternary structure:
    • Homotrimer (By similarity). Interacts with TNFRSF11B (PubMed:22664871). Interacts with TNFRSF11A. Interacts with FBN1 (via N-terminal domain) in a Ca(+2)-dependent manner (By similarity).

    Three dimensional structures from OCA and Proteopedia for TNFSF11 Gene

    Alternative splice isoforms for TNFSF11 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNFSF11 Gene

Post-translational modifications for TNFSF11 Gene

  • The soluble form of isoform 1 derives from the membrane form by proteolytic processing (By similarity). The cleavage may be catalyzed by ADAM17.
  • Glycosylation at Asn171 and Asn198
  • Modification sites at PhosphoSitePlus

Other Protein References for TNFSF11 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibodies for research

Protein products for research

No data available for DME Specific Peptides for TNFSF11 Gene

Domains & Families for TNFSF11 Gene

Gene Families for TNFSF11 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • CD markers
  • Disease related genes
  • FDA approved drug targets
  • Predicted intracellular proteins
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for TNFSF11 Gene

InterPro:
Blocks:
  • Tumor Necrosis Factor

Suggested Antigen Peptide Sequences for TNFSF11 Gene

GenScript: Design optimal peptide antigens:
  • Tumor necrosis factor (Ligand) superfamily, member 11, isoform CRA_c (Q5T9Y4_HUMAN)
  • TNF-related activation-induced cytokine (TNF11_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O14788

UniProtKB/Swiss-Prot:

TNF11_HUMAN :
  • Belongs to the tumor necrosis factor family.
Family:
  • Belongs to the tumor necrosis factor family.
genes like me logo Genes that share domains with TNFSF11: view

Function for TNFSF11 Gene

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Molecular function for TNFSF11 Gene

UniProtKB/Swiss-Prot Function:
Cytokine that binds to TNFRSF11B/OPG and to TNFRSF11A/RANK. Osteoclast differentiation and activation factor. Augments the ability of dendritic cells to stimulate naive T-cell proliferation. May be an important regulator of interactions between T-cells and dendritic cells and may play a role in the regulation of the T-cell-dependent immune response. May also play an important role in enhanced bone-resorption in humoral hypercalcemia of malignancy (PubMed:22664871). Induces osteoclastogenesis by activating multiple signaling pathways in osteoclast precursor cells, chief among which is induction of long lasting oscillations in the intracellular concentration of Ca (2+) resulting in the activation of NFATC1, which translocates to the nucleus and induces osteoclast-specific gene transcription to allow differentiation of osteoclasts. During osteoclast differentiation, in a TMEM64 and ATP2A2-dependent manner induces activation of CREB1 and mitochondrial ROS generation necessary for proper osteoclast generation (By similarity).
UniProtKB/Swiss-Prot Induction:
Up-regulated by T-cell receptor stimulation.
GENATLAS Biochemistry:
tumor necrosis factor superfamily,member 11 TNFRSF11A (RANK) and OPG (osteprogerin ligand),localized in T cells bone marrow stromal cells,hypertrophic chondrocyte,stimulated by IL1B and TNFRSF11B,expressed in bone, brain,heart,kidney,skeletal muscle,skin,cooperating with prostaglandin,mediating osteoclastognesis and bone loss through systemic activation of T cells,regulating lymph node organogenesis lymphocyte development and interactions between T cells and dendritic cells,activating the antiapoptotic serine threonine kinase AKT/PKB through a signal complex involving TRAF6 and SRC

Phenotypes From GWAS Catalog for TNFSF11 Gene

Gene Ontology (GO) - Molecular Function for TNFSF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005125 cytokine activity IDA,NAS 9568710
GO:0005164 tumor necrosis factor receptor binding NAS 9312132
GO:0005515 protein binding IPI 18586671
GO:0032813 tumor necrosis factor receptor superfamily binding IC 19940926
GO:0042802 identical protein binding IEA --
genes like me logo Genes that share ontologies with TNFSF11: view
genes like me logo Genes that share phenotypes with TNFSF11: view

Human Phenotype Ontology for TNFSF11 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for TNFSF11 Gene

MGI Knock Outs for TNFSF11:

Animal Models for research

miRNA for TNFSF11 Gene

miRTarBase miRNAs that target TNFSF11

Inhibitory RNAs for research

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Clone products for research

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for TNFSF11 Gene

Localization for TNFSF11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TNFSF11 Gene

[Isoform 1]: Cell membrane. Single-pass type II membrane protein.
[Isoform 3]: Cell membrane. Single-pass type II membrane protein.
[Isoform 2]: Cytoplasm.
[Tumor necrosis factor ligand superfamily member 11, soluble form]: Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TNFSF11 gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytoskeleton 3
mitochondrion 3
nucleus 3
endoplasmic reticulum 2
endosome 2
cytosol 2
lysosome 2
peroxisome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for TNFSF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IEA --
GO:0005737 cytoplasm IEA --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane NAS 9312132
genes like me logo Genes that share ontologies with TNFSF11: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TNFSF11 Gene

Pathways & Interactions for TNFSF11 Gene

PathCards logo

SuperPathways for TNFSF11 Gene

SuperPathway Contained pathways
1 PEDF Induced Signaling
MIF Mediated Glucocorticoid Regulation
.94
MIF Regulation of Innate Immune Cells
.94
PEDF Induced Signaling
.73
all-trans-Retinoic Acid Signaling in Brain
.71
RAR-Gamma-RXR-Alpha Degradation
.62
IL-6 Pathway
.61
STAT3 Pathway
.47
Endothelin-1 Signaling Pathway
.46
Cytokine-cytokine receptor interaction
.43
2 ERK Signaling
ERK Signaling
.61
Rho Family GTPases
.61
Molecular Mechanisms of Cancer
.51
3 RANK Signaling in Osteoclasts
RANK Signaling in Osteoclasts
.45
RANK Pathway
.38
RANKL/RANK (Receptor activator of NFKB (ligand)) Signaling Pathway
.31
4 TNF Superfamily Pathway: Human Ligand-Receptor Interactions and their Associated Functions
TNF Superfamily Pathway: Human Ligand-Receptor Interactions and their Associated Functions
.52
TNFs bind their physiological receptors
.52
5 TNFR1 Pathway
TRAIL Pathway
.40
TNF Signaling
.34
genes like me logo Genes that share pathways with TNFSF11: view

Pathways by source for TNFSF11 Gene

1 Sino Biological pathway for TNFSF11 Gene
3 GeneGo (Thomson Reuters) pathways for TNFSF11 Gene
  • Apoptosis and survival Anti-apoptotic TNFs/NF-kB/Bcl-2 pathway
  • Development_Hedgehog and PTH signaling pathways in bone and cartilage development
  • Transcription_Role of VDR in regulation of genes involved in osteoporosis
20 Qiagen pathways for TNFSF11 Gene
  • Akt Signaling
  • all-trans-Retinoic Acid Signaling in Brain
  • Antioxidant Action of Vitamin-C
  • Endothelin-1 Signaling Pathway
  • ERK Signaling
2 Cell Signaling Technology pathways for TNFSF11 Gene

SIGNOR curated interactions for TNFSF11 Gene

Activates:
Is activated by:

Gene Ontology (GO) - Biological Process for TNFSF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001503 ossification IEA --
GO:0002158 osteoclast proliferation IEA --
GO:0002548 monocyte chemotaxis IDA 15248232
GO:0006955 immune response NAS 9312132
GO:0007257 activation of JUN kinase activity IEA --
genes like me logo Genes that share ontologies with TNFSF11: view

Drugs & Compounds for TNFSF11 Gene

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(66) Drugs for TNFSF11 Gene - From: DrugBank, PharmGKB, DGIdb, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Lenalidomide Approved Pharma Target, inhibitor, Anti-angiogenic. Anti-angiogenic. 960
Denosumab Approved Pharma Target, antibody, antagonist RANKL antagonist, Osteoclast function modifiers (important in bone metastasis) 228
Anastrozole Approved, Investigational Pharma Aromatase inhibitor, Potent aromatase (CYP19) inhibitor, Aromatase Inhibitors, Hormone therapy 354
Letrozole Approved, Investigational Pharma Non-steroidal aromatase inhibitor, Aromatase Inhibitors 568
Thiocolchicoside Experimental Pharma Target, antagonist 0

(40) Additional Compounds for TNFSF11 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with TNFSF11: view

Transcripts for TNFSF11 Gene

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mRNA/cDNA for TNFSF11 Gene

2 REFSEQ mRNAs :
16 NCBI additional mRNA sequence :
5 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TNFSF11

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for TNFSF11 Gene

No ASD Table

Relevant External Links for TNFSF11 Gene

GeneLoc Exon Structure for
TNFSF11

Expression for TNFSF11 Gene

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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TNFSF11 Gene

mRNA expression in normal human tissues for TNFSF11 Gene
mRNA expression by BioGPS for TNFSF11 GenemRNA expression by GTEx for TNFSF11 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TNFSF11 Gene

This gene is overexpressed in Small Intestine - Terminal Ileum (x4.8).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TNFSF11

SOURCE GeneReport for Unigene cluster for TNFSF11 Gene:

Hs.333791

mRNA Expression by UniProt/SwissProt for TNFSF11 Gene:

O14788-TNF11_HUMAN
Tissue specificity: Highest in the peripheral lymph nodes, weak in spleen, peripheral blood Leukocytes, bone marrow, heart, placenta, skeletal muscle, stomach and thyroid.

Evidence on tissue expression from TISSUES for TNFSF11 Gene

  • Bone marrow(4.7)
  • Lymph node(4.6)
  • Blood(4.6)
  • Lung(4.4)
  • Bone(3.7)
  • Spleen(2.8)
  • Muscle(2.4)
  • Intestine(2.4)
  • Thyroid gland(2.3)
  • Kidney(2.3)
  • Heart(2.3)
  • Skin(2.3)
  • Liver(2.2)
  • Nervous system(2.2)

Phenotype-based relationships between genes and organs from Gene ORGANizer for TNFSF11 Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • cardiovascular
  • digestive
  • immune
  • integumentary
  • lymphatic
  • nervous
  • respiratory
  • skeletal muscle
  • skeleton
  • urinary
Regions:
Head and neck:
  • brain
  • cerebellum
  • cerebrospinal fluid
  • cranial nerve
  • ear
  • eye
  • face
  • forehead
  • head
  • jaw
  • mandible
  • maxilla
  • meninges
  • mouth
  • neck
  • nose
  • pharynx
  • sinus
  • skull
  • tooth
Thorax:
  • chest wall
  • clavicle
  • rib
  • rib cage
  • scapula
  • sternum
Abdomen:
  • biliary tract
  • kidney
  • liver
  • spleen
Pelvis:
  • pelvis
Limb:
  • ankle
  • arm
  • digit
  • elbow
  • femur
  • fibula
  • finger
  • foot
  • forearm
  • hand
  • hip
  • humerus
  • knee
  • lower limb
  • radius
  • shin
  • shoulder
  • thigh
  • tibia
  • toe
  • ulna
  • upper limb
  • wrist
General:
  • blood
  • blood vessel
  • bone marrow
  • coagulation system
  • hair
  • lymph node
  • peripheral nervous system
  • red blood cell
  • skin
  • spinal column
  • vertebrae
  • white blood cell
genes like me logo Genes that share expression patterns with TNFSF11: view

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No data available for Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for TNFSF11 Gene

Orthologs for TNFSF11 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TNFSF11 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia TNFSF11 29 30
  • 99.26 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia TNFSF11 29 30
  • 89.21 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia TNFSF11 29 30
  • 87.55 (n)
 OneToOne
Mouse
(Mus musculus)
 Mammalia Tnfsf11 29 16 30
  • 83.07 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Tnfsf11 29
  • 82.33 (n)
Platypus
(Ornithorhynchus anatinus)
 Mammalia TNFSF11 30
  • 78 (a)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia TNFSF11 30
  • 73 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves TNFSF11 29 30
  • 68.41 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia TNFSF11 30
  • 62 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia tnfsf11 29
  • 54.26 (n)
Zebrafish
(Danio rerio)
 Actinopterygii tnfsf11 30
  • 23 (a)
 OneToOne
Species where no ortholog for TNFSF11 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for TNFSF11 Gene

ENSEMBL:
Gene Tree for TNFSF11 (if available)
TreeFam:
Gene Tree for TNFSF11 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TNFSF11: view image
Alliance of Genome Resources:
Additional Orthologs for TNFSF11

Paralogs for TNFSF11 Gene

Paralogs for TNFSF11 Gene

(1) SIMAP similar genes for TNFSF11 Gene using alignment to 2 proteins:

  • TNF11_HUMAN
  • Q5T9Y4_HUMAN

Pseudogenes.org Pseudogenes for TNFSF11 Gene

genes like me logo Genes that share paralogs with TNFSF11: view

Variants for TNFSF11 Gene

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Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TNFSF11 Gene

SNP ID Clinical significance and condition Chr 13 pos Variation AA Info Type
1012150 Uncertain Significance: not provided 42,581,169(+) A/G
NM_003701.4(TNFSF11):c.263A>G (p.Tyr88Cys) 		MISSENSE
1023946 Uncertain Significance: not provided 42,574,413(+) C/G
NM_003701.4(TNFSF11):c.110C>G (p.Ala37Gly) 		MISSENSE_VARIANT,INTRON
880855 Uncertain Significance: Autosomal recessive osteopetrosis 2 42,574,200(+) C/T
NM_003701.4(TNFSF11):c.-104C>T 		FIVE_PRIME_UTR_VARIANT,INTRON
880856 Uncertain Significance: Autosomal recessive osteopetrosis 2 42,574,210(+) C/T
NM_003701.4(TNFSF11):c.-94C>T 		FIVE_PRIME_UTR_VARIANT,INTRON
880857 Uncertain Significance: Autosomal recessive osteopetrosis 2 42,574,297(+) G/C
NM_003701.4(TNFSF11):c.-7G>C 		FIVE_PRIME_UTR_VARIANT,INTRON

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for TNFSF11 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for TNFSF11 Gene

Variant ID Type Subtype PubMed ID
esv2747320 CNV deletion 23290073
esv33319 CNV loss 17666407
nsv832593 CNV gain 17160897

Variation tolerance for TNFSF11 Gene

Residual Variation Intolerance Score: 57.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.78; 47.33% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TNFSF11 Gene

Human Gene Mutation Database (HGMD)
TNFSF11
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TNFSF11
Leiden Open Variation Database (LOVD)
TNFSF11

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TNFSF11 Gene

Disorders for TNFSF11 Gene

MalaCards: The human disease database

(116) MalaCards diseases for TNFSF11 Gene - From: OMI, CVR, GTR, ORP, SWI, COP, and GCD

Disorder Aliases PubMed IDs
osteopetrosis, autosomal recessive 2
  • optb2
autosomal recessive malignant osteopetrosis
  • infantile malignant osteopetrosis
osteopetrosis
  • albers-schonberg disease
periapical granuloma
  • apical granuloma
multicentric carpotarsal osteolysis syndrome
  • mcto
- elite association - COSMIC cancer census association via MalaCards

UniProtKB/Swiss-Prot

TNF11_HUMAN
  • Osteopetrosis, autosomal recessive 2 (OPTB2) [MIM:259710]: A rare genetic disease characterized by abnormally dense bone, due to defective resorption of immature bone. Osteopetrosis occurs in two forms: a severe autosomal recessive form occurring in utero, infancy, or childhood, and a benign autosomal dominant form occurring in adolescence or adulthood. Recessive osteopetrosis commonly manifests in early infancy with macrocephaly, feeding difficulties, evolving blindness and deafness, bone marrow failure, severe anemia, and hepatosplenomegaly. Deafness and blindness are generally thought to represent effects of pressure on nerves. OPTB2 is characterized by paucity of osteoclasts, suggesting a molecular defect in osteoclast development. {ECO:0000269 PubMed:17632511}. Note=The disease is caused by variants affecting the gene represented in this entry.

Additional Disease Information for TNFSF11

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No data available for Genatlas for TNFSF11 Gene

Publications for TNFSF11 Gene

  1. A homologue of the TNF receptor and its ligand enhance T-cell growth and dendritic-cell function. (PMID: 9367155) Anderson DM … Galibert L (Nature 1997) 2 3 4 22
  2. Genetic variations in genes encoding RANK, RANKL, and OPG in rheumatoid arthritis: a case-control study. (PMID: 20231205) Assmann G … Wieczorek S (The Journal of rheumatology 2010) 3 22 40
  3. The combinations of polymorphisms in vitamin D receptor, osteoprotegerin and tumour necrosis factor superfamily member 11 genes are associated with bone mineral density. (PMID: 19131500) Mencej-Bedrac S … Marc J (Journal of molecular endocrinology 2009) 3 22 40
  4. Multiple genetic loci for bone mineral density and fractures. (PMID: 18445777) Styrkarsdottir U … Stefansson K (The New England journal of medicine 2008) 3 22 40
  5. Osteoclast-poor human osteopetrosis due to mutations in the gene encoding RANKL. (PMID: 17632511) Sobacchi C … Helfrich MH (Nature genetics 2007) 3 4 72

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