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TNFSF12-TNFSF13 Gene

protein-coding   GIFtS: 34
GCID: GC17P007453

TNFSF12-TNFSF13 Readthrough

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
TNFSF12-TNFSF13 Readthrough1 2
TWE-PRIL2
TNFSF12-TNFSF13 Protein2
Tumor Necrosis Factor (Ligand) Superfamily, Member 12-Member 132

External Ids:    HGNC: 335371   Entrez Gene: 4079772   Ensembl: ENSG000002488717   UniProtKB: Q6U6I74   UniProtKB: K7EJ284   

Export aliases for TNFSF12-TNFSF13 gene to outside databases

Previous GC identifers: GC17U900475 GC17P007393 GC17P007347


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for TNFSF12-TNFSF13 Gene:
This gene encodes a member of the tumor necrosis factor superfamily. It encodes a hybrid protein composed of the
cytoplasmic and transmembrane domains of family member 12 fused to the C-terminal domain of family member 13. The
hybrid protein is membrane anchored and presents the receptor-binding domain of family member 13 at the cell
surface. It stimulates cycling in T- and B-lymphoma cell lines. (provided by RefSeq, Jul 2008)

GeneCards Summary for TNFSF12-TNFSF13 Gene:
TNFSF12-TNFSF13 (TNFSF12-TNFSF13 readthrough) is a protein-coding gene. Diseases associated with TNFSF12-TNFSF13 include rheumatic disease. An important paralog of this gene is TNFSF13B.

Gene Wiki entry for TNFSF12-TNFSF13 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Regulatory transcription factor binding sites in the TNFSF12-TNFSF13 gene promoter:
         AP-1   ATF-2   MyoD   NF-kappaB   FOXO1a   c-Jun   NF-kappaB1   FOXO1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): TNFSF12-TNFSF13 promoter sequence
   Search Chromatin IP Primers for TNFSF12-TNFSF13

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TNFSF12-TNFSF13


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 17p13.1   Ensembl cytogenetic band:  17p13.1   HGNC cytogenetic band: 17p13.1

TNFSF12-TNFSF13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TNFSF12-TNFSF13 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P007453:  view genomic region     (about GC identifiers)

Start:
7,452,375 bp from pter      End:
7,464,925 bp from pter
Size:
12,551 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/TrEMBL: Q6U6I7 (See protein sequence)
Recommended Name: APRIL  
Size: 146 amino acids; 16351 Da

UniProtKB/TrEMBL: K7EJ28 (See protein sequence)

Recommended Name: Tumor necrosis factor ligand superfamily member 13  
Size: 114 amino acids; 12839 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered
as preliminary data

Explore proteomics data for TNFSF12-TNFSF13 at MOPED


See TNFSF12-TNFSF13 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_742086.1  
ENSEMBL proteins: 
 ENSP00000293826  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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3 InterPro protein domains:
 IPR006052 TNF_dom
 IPR008983 Tumour_necrosis_fac-like_dom
 IPR021184 TNF_CS

Graphical View of Domain Structure for InterPro Entry Q6U6I7
Graphical View of Domain Structure for InterPro Entry K7EJ28

ProtoNet protein and cluster: Q6U6I7

1 Blocks protein domain: IPB006052 Tumor Necrosis Factor


Find genes that share domains with TNFSF12-TNFSF13           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 3 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005125cytokine activity ----
GO:0005164tumor necrosis factor receptor binding ----
GO:0005515protein binding ----
     
Find genes that share ontologies with TNFSF12-TNFSF13           About GenesLikeMe


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SwitchGear 3'UTR luciferase reporter plasmidTNFSF12-TNFSF13 3' UTR sequence
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005615extracellular space ----
GO:0016020membrane ----

Find genes that share ontologies with TNFSF12-TNFSF13           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for TNFSF12-TNFSF13 About    
See pathways by source

SuperPathContained pathways About
1CDK-mediated phosphorylation and removal of Cdc6
Regulation of mRNA Stability by Proteins that Bind AU-rich Elements0.62
Stabilization of mRNA by HuR0.00
2Gene Expression
Gene Expression0.40
3TWEAK Pathway
TWEAK Signaling Pathway0.31


1 BioSystems Pathway for TNFSF12-TNFSF13
    TWEAK Signaling Pathway


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Interactions:

    Search GeneGlobe Interaction Network for TNFSF12-TNFSF13

STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

3 Interacting proteins for TNFSF12-TNFSF13 (ENSP000002938264) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
AGGF1ENSP000003161094STRING: ENSP00000316109
TNFRSF25ENSP000003670134STRING: ENSP00000367013
TNFRSF12AENSP000003267374STRING: ENSP00000326737
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Gene Ontology (GO): 1 biological process term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006955immune response ----

Find genes that share ontologies with TNFSF12-TNFSF13           About GenesLikeMe



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
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Browse Tocris compounds for TNFSF12-TNFSF13



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for TNFSF12-TNFSF13 gene: 
NM_172089.3  

1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000293826(uc002ghi.1)
miRNA
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hsa-miR-516b hsa-miR-26b* hsa-miR-1270 hsa-miR-3158-3p hsa-miR-199a-5p hsa-miR-620 hsa-miR-199b-5p hsa-miR-145
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Selected AceView cDNA sequences (see all 342):

AA512971 BC008042 CA396679 BM662622 AI720462 AI250901 AI127694 AI267879 
AI378132 AI310092 BM712014 CA941046 BE858822 AI432668 AI422796 AI202121 
AI378112 AA424562 CD366782 BF196031 AI581741 BF476443 AI149460 CD370028 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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TNFSF12-TNFSF13 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
TNFSF12-TNFSF13 Expression
About this image

TNFSF12-TNFSF13 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

TNFSF12-TNFSF13 Protein Expression
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In Situ
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of chordates.

Orthologs for TNFSF12-TNFSF13 gene from Selected species (see all 8)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia BC0964415
Tnfsf12Tnfsf131
cDNA sequence BC0964415
Tnfsf12-Tnfsf13 readthrough transcript1
85.03(n)1
83.83(a)1
  11 (42.86 cM)5
6194411  NM_001034097.21  NP_001029269.11 
 696825775 
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
33(a)
1 → many
GL343660.1(16198-37951)
zebrafish
(Danio rerio)
Actinopterygii tnfsf131 tumor necrosis factor (ligand) superfamily, member more 51.75(n)
41.45(a)
  100149404  NM_001168464.1  NP_001161936.1 


ENSEMBL Gene Tree for TNFSF12-TNFSF13 (if available)
TreeFam Gene Tree for TNFSF12-TNFSF13 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for TNFSF12-TNFSF13 gene
TNFSF13B2  TNFSF122  TNFSF132  

Find genes that share paralogs with TNFSF12-TNFSF13           About GenesLikeMe



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Structural Variations
     Database of Genomic Variants (DGV) 4 variations for TNFSF12-TNFSF13:    About this table    
Variant IDTypeSubtypePubMed ID
esv2422288CNV Deletion17116639
nsv457659CNV Loss19166990
nsv907651CNV Loss21882294
nsv523672CNV Loss19592680

Site Specific Mutation Identification with PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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1 disease for TNFSF12-TNFSF13:    
About MalaCards
rheumatic disease


Find genes that share disorders with TNFSF12-TNFSF13           About GenesLikeMe

Genetic Association Database (GAD): TNFSF12-TNFSF13
Human Genome Epidemiology (HuGE) Navigator: TNFSF12-TNFSF13 (3 documents)

Export disorders for TNFSF12-TNFSF13 gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for TNFSF12-TNFSF13 gene, integrated from 10 sources (see all 19):
(articles sorted by number of sources associating them with TNFSF12-TNFSF13)
    Utopia: connect your pdf to the dynamic
world of online information

  1. An endogenous hybrid mRNA encodes TWE-PRIL, a functional cell surface TWEAK-APRIL fusion protein. (PubMed id 12411489)1, 3, 9 Pradet-Balade B....Hahne M. (EMBO J. 2002)
  2. Association of common variants in TNFRSF13B, TNFSF13, and ANXA3 with serum levels of non-albumin protein and immunoglobulin isotypes in Japanese. (PubMed id 22558069)1, 4 Osman W....Nakamura Y. (PLoS ONE 2012)
  3. A genome-wide association study in Han Chinese identifies multiple susceptibility loci for IgA nephropathy. (PubMed id 22197929)1, 4 Yu X.Q....Liu J.J. (Nat. Genet. 2012)
  4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
  5. Role of APRIL (TNFSF13) polymorphisms in the susceptibility to systemic lupus erythematosus in Japanese. (PubMed id 17307753)1, 9 Kawasaki A....Tokunaga K. (Rheumatology (Oxford) 2007)
  6. Genome-wide association study identifies TNFSF13 as a susceptibility gene for IgA in a South Chinese population in smokers. (PubMed id 22864923)1 Yang C....Zengnan M. (Immunogenetics 2012)
  7. Genome-wide scan identifies variant in TNFSF13 associated with serum IgM in a healthy Chinese male population. (PubMed id 23118916)1 Yang M....Mo Z. (PLoS ONE 2012)
  8. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (PLoS ONE 2010)
  9. Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (Am. J. Hum. Genet. 2009)
  10. Interferon-beta increases BAFF levels in multiple sclerosis: implications for B cell autoimmunity. (PubMed id 18474519)1 Krumbholz M....Meinl E. (Brain 2008)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 407977 HGNC: 33537 AceView: TNFSF13 Ensembl:ENSG00000248871 euGenes: HUgn407977
ECgene: TNFSF12-TNFSF13 H-InvDB: TNFSF12-TNFSF13

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for TNFSF12-TNFSF13 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for TNFSF12-TNFSF13 gene:
Search GeneIP for patents involving TNFSF12-TNFSF13

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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