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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TNFSF12-TNFSF13 Gene

protein-coding   GIFtS: 36
GCID: GC17P007453

TNFSF12-TNFSF13 Readthrough

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

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   
ORGUL members:         
NONCODE14:n410200      

Export aliases for TNFSF12-TNFSF13 gene to outside databases

Previous GC identifers: GC17U900475 GC17P007393 GC17P007347


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

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, and is affiliated with the lncRNA class. Diseases associated with TNFSF12-TNFSF13 include rheumatic disease, and systemic lupus erythematosus, and among its related super-pathways are TWEAK Pathway. 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   SABiosciences 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 SABiosciences Chromatin IP Primers for TNFSF12-TNFSF13

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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 UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

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 

TNFSF12-TNFSF13 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

TNFSF12-TNFSF13 Protein Expression

REFSEQ proteins: NP_742086.1  
ENSEMBL proteins: 
 ENSP00000293826  

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Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

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

TNFSF12-TNFSF13 for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
3 InterPro protein domains:
 IPR006052 TNF
 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


TNFSF12-TNFSF13 for domains           About GeneDecksing


(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,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

     Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005125cytokine activity ----
GO:0005164tumor necrosis factor receptor binding ----
GO:0005515protein binding ----
     
TNFSF12-TNFSF13 for ontologies           About GeneDecksing


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SwitchGear 3'UTR luciferase reporter plasmidTNFSF12-TNFSF13 3' UTR sequence
Inhib. RNA
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(Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
About This Section

SuperPaths for TNFSF12-TNFSF13 About                                                                                                See pathways by source

SuperPathContained pathways About
1TWEAK Pathway
TWEAK Signaling Pathway0.31


1 BioSystems Pathway for TNFSF12-TNFSF13
    TWEAK Signaling Pathway


Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks 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
About this table

Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

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

TNFSF12-TNFSF13 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for TNFSF12-TNFSF13

Search CenterWatch for drugs/clinical trials and news about 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,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

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
SwitchGear 3'UTR luciferase reporter plasmidTNFSF12-TNFSF13 3' UTR sequence
Inhib. RNA
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24/342 AceView cDNA sequences (see all 342):

BF439993 AI244659 BF222608 BM997880 AI492292 H00454 CD370028 AA424562 
AI954750 NM_153012 AW592336 NM_172087 AW195034 AI378132 AI127694 BM662622 
BU951915 AI581741 AW301028 AI339802 AK090698 AI720462 AY377858 CB528323 

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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

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


See TNFSF12-TNFSF13 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TNFSF12-TNFSF13
    SABiosciences Custom PCR Arrays for TNFSF12-TNFSF13
Primer
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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)
About This Section

This gene was present in the common ancestor of chordates.

Orthologs for TNFSF12-TNFSF13 gene from 3/7 species (see all 7)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia BC0964411 , 5 cDNA sequence BC0964411, 5 85.09(n)1
84.08(a)1
  11 (42.86 cM)5
6194411  NM_001159503.21  NP_001152975.11 
 696825775 
lizard
(Anolis carolinensis)
Reptilia --
--
34(a)
1 → many
GL343660.1(16198-37951)
zebrafish
(Danio rerio)
Actinopterygii tnfsf136
tumor necrosis factor (ligand) superfamily, member...
33(a)
1 → many
5(71366008-71376195)


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)
About This Section
Paralogs for TNFSF12-TNFSF13 gene
TNFSF13B2  TNFSF122  TNFSF132  

TNFSF12-TNFSF13 for paralogs           About GeneDecksing



(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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
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

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
4 diseases for TNFSF12-TNFSF13:    About MalaCards
rheumatic disease    systemic lupus erythematosus    multiple sclerosis    lupus erythematosus


TNFSF12-TNFSF13 for disorders           About GeneDecksing

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)
About This Section

PubMed articles for TNFSF12-TNFSF13 gene, integrated from 9 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. (2002)
  2. Association of common variants in TNFRSF13B, TNFSF13, and ANXA3 with serum levels of non-albumin protein and immunoglobulin isotypes i n Japanese. (PubMed id 22558069)1, 4 Osman W....Nakamura Y. (2012)
  3. A genome-wide association study in Han Chinese identif ies multiple susceptibility loci for IgA nephropathy. (PubMed id 22197929)1, 4 Yu X.Q....Liu J.J. (2012)
  4. Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (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. (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. (2012)
  7. Genome-wide scan identifies variant in TNFSF13 associa ted with serum IgM in a healthy Chinese male population. (PubMed id 23118916)1 Yang M....Mo Z. (2012)
  8. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (2010)
  9. Gene-centric association signals for lipids and apoli poproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (2009)
  10. Interferon-beta increases BAFF levels in multiple sclerosis: implications for B cell autoimmunity. (PubMed id 18474519)1 Krumbholz M....Meinl E. (2008)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 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)
About This Section
Entrez Gene: 407977 HGNC: 33537 AceView: TNFSF13 Ensembl:ENSG00000248871 euGenes: HUgn407977
ECgene: TNFSF12-TNFSF13 H-InvDB: TNFSF12-TNFSF13

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
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.)
About This Section
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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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