Tnfsf13 (tumor necrosis factor (ligand) superfamily, member 13) - Rat Genome Database
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Gene: Tnfsf13 (tumor necrosis factor (ligand) superfamily, member 13) Mus musculus
Analyze
Symbol: Tnfsf13
Name: tumor necrosis factor (ligand) superfamily, member 13
RGD ID: 1314163
MGI Page MGI
Description: Predicted to have signaling receptor binding activity. Involved in immunoglobulin production in mucosal tissue; positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains; and positive regulation of cell population proliferation. Localizes to external side of plasma membrane. Is expressed in central nervous system; renal vasculature; retina outer nuclear layer; and superior cervical ganglion. Human ortholog(s) of this gene implicated in B-lymphoblastic leukemia/lymphoma. Orthologous to human TNFSF13 (TNF superfamily member 13); PARTICIPATES IN rheumatoid arthritis pathway; INTERACTS WITH 1,1-dichloroethene; 1-chloro-2,4-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 2310026N09Rik; a proliferation-inducing ligand; APRIL; MGC106105; TA; TALL2; Tnfsf12; Tnlg7b; TRD; TRDL1; tumor necrosis factor (ligand) superfamily, member 12; tumor necrosis factor ligand 7b; tumor necrosis factor ligand superfamily member 13
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,573,403 - 69,576,380 (-)NCBIGRCm39mm39
GRCm381169,682,577 - 69,685,554 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,682,846 - 69,685,784 (-)EnsemblGRCm38mm10GRCm38
MGSCv371169,496,079 - 69,499,056 (-)NCBIGRCm37mm9NCBIm37
MGSCv361169,498,772 - 69,501,749 (-)NCBImm8
MGSCv361170,266,684 - 70,269,661 (-)NCBImm8
Cytogenetic Map11B3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11239407   PMID:12070306   PMID:12354377   PMID:12477932   PMID:14729948   PMID:14988498   PMID:15226823   PMID:15451660   PMID:15489334  
PMID:15846369   PMID:15851487   PMID:16141072   PMID:16141073   PMID:16293214   PMID:16914324   PMID:16919470   PMID:16931039   PMID:17947668   PMID:18180376   PMID:18287559   PMID:18322170  
PMID:18471884   PMID:18483203   PMID:18618015   PMID:19016524   PMID:19037968   PMID:19427796   PMID:21182087   PMID:21217761   PMID:21471524   PMID:21642598   PMID:21677750   PMID:21873635  
PMID:22127792   PMID:22170570   PMID:22355399   PMID:23178148   PMID:23178293   PMID:23620746   PMID:23797666   PMID:24100449   PMID:24444792   PMID:24512739   PMID:25496308   PMID:25631080  
PMID:25753925   PMID:25953898   PMID:26150532   PMID:26348210   PMID:26646413   PMID:27098833   PMID:27353252   PMID:27480124   PMID:28267197   PMID:28381397   PMID:28911883   PMID:30337376  
PMID:30635946   PMID:30819903   PMID:31152755   PMID:31258536   PMID:32075728  


Genomics

Comparative Map Data
Tnfsf13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,573,403 - 69,576,380 (-)NCBIGRCm39mm39
GRCm381169,682,577 - 69,685,554 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,682,846 - 69,685,784 (-)EnsemblGRCm38mm10GRCm38
MGSCv371169,496,079 - 69,499,056 (-)NCBIGRCm37mm9NCBIm37
MGSCv361169,498,772 - 69,501,749 (-)NCBImm8
MGSCv361170,266,684 - 70,269,661 (-)NCBImm8
Cytogenetic Map11B3NCBI
TNFSF13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl177,558,292 - 7,561,608 (+)EnsemblGRCh38hg38GRCh38
GRCh38177,558,282 - 7,561,601 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37177,461,599 - 7,464,925 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh37177,461,609 - 7,464,925 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36177,402,340 - 7,405,642 (+)NCBINCBI36hg18NCBI36
Build 34177,402,339 - 7,405,641NCBI
Celera177,487,932 - 7,491,248 (+)NCBI
Cytogenetic Map17p13.1NCBI
HuRef177,355,794 - 7,359,110 (+)NCBIHuRef
CHM1_1177,470,571 - 7,473,887 (+)NCBICHM1_1
Tnfsf13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21054,400,054 - 54,403,723 (-)NCBI
Rnor_6.0 Ensembl1056,286,887 - 56,289,952 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01056,286,964 - 56,290,680 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01056,032,602 - 56,036,336 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41056,499,945 - 56,502,928 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11056,513,568 - 56,516,551 (-)NCBI
Celera1053,554,575 - 53,557,558 (-)NCBICelera
Cytogenetic Map10q24NCBI
TNFSF13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1177,576,518 - 7,579,834 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl177,576,465 - 7,579,834 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0177,589,931 - 7,593,527 (+)NCBIMhudiblu_PPA_v0panPan3
TNFSF13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl532,482,723 - 32,484,789 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1532,482,723 - 32,484,790 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Tnfsf13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936595839,877 - 842,962 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFSF13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1252,853,665 - 52,857,033 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11252,853,646 - 52,857,033 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103242307
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1166,935,073 - 6,938,792 (+)NCBI
ChlSab1.1 Ensembl166,926,584 - 6,938,019 (+)Ensembl
Tnfsf13
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478610,175,534 - 10,179,233 (+)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11330000072800000Mouse
13208559Wght10_mweight 10 (mouse)11400000089000000Mouse
13208558Lgth12_mbody length 12 (mouse)11400000095000000Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11693027789128908Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111231863769794121Mouse
1357859Lvrq7_mliver weight QTL 7 (mouse)Not determined1112318637118131898Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112318637118131898Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1917420497007000Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112185736495990405Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113568778969794161Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113600000085000000Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113639175083590530Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113661246070618665Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113672273870723028Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113719011571190238Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113812528972125383Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114236579176365904Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114236579176365904Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114473921176963931Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44739211113167183Mouse
4141000Nidd3_mnon-insulin-dependent diabetes mellitus 3 (mouse)Not determined4515120179151308Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114527504680087498Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114581775489927907Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114629434180294436Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114642858180428696Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115018736584187585Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115260355986603559Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115349976287499911Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115423592683842826Mouse
4141875Etax9_methanol induced ataxia 9 (mouse)Not determined5539415972319101Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156973201114267131Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115786383491863932Mouse
10053682Eae45_mexperimental allergic encephalomyelitis susceptibility 45 (mouse)Not determined115859972974863932Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15861720487804412Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5882844085175703Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116179599488808902Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116226517996265327Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162700000109500000Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116342858181939647Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116342858194173092Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116493951098939647Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116493951098939647Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116493951098939647Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166842594100842826Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166842594100842826Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66842594100842826Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166842594100842826Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166842594100842826Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166842594100842826Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116718736579923086Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168300000102000000Mouse
36049778Ars6_mantibody response to SARS-CoV 6, day 15, IgM (mouse)116910000072600000Mouse
36049779Ars7_mantibody response to SARS-CoV 7, day 29, IgG1 (mouse)116910000072600000Mouse
36049784Ars8_mantibody response to SARS-CoV 8, day 29, IgG2a+IgG2c (mouse)116910000072600000Mouse
36049785Ars9_mantibody response to SARS-CoV 9, day 29, IgM (mouse)116910000072600000Mouse
36049786Ars10_mantibody response to SARS-CoV 10, 4 days post-rechallenge, IgG2a+IgG2c (mouse)116910000072600000Mouse
36049787Ars11_mantibody response to SARS-CoV 11, 4 days post-rechallenge, IgM (mouse)116910000072600000Mouse
36049788Ars1_mantibody response to SARS-CoV 1, day 7, IgG1 (mouse)116910000072600000Mouse
36049789Ars2_mantibody response to SARS-CoV 2, day 7, IgG2a+IgG2c (mouse)116910000072600000Mouse
36049790Ars3_mantibody response to SARS-CoV 3, day 7, IgG2b (mouse)116910000072600000Mouse
36049791Ars4_mantibody response to SARS-CoV 4, day 7, IgG3 (mouse)116910000072600000Mouse
36049792Ars5_mantibody response to SARS-CoV 5, day 7, IgM (mouse)116910000072600000Mouse
35673314Ari2_mantibody response to influenza 2, day 10, IgG3 (mouse)116910000072600000Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:409
Count of miRNA genes:190
Interacting mature miRNAs:229
Transcripts:ENSMUST00000018896, ENSMUST00000108648
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000018896   ⟹   ENSMUSP00000018896
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1169,682,846 - 69,685,554 (-)Ensembl
RefSeq Acc Id: ENSMUST00000108648   ⟹   ENSMUSP00000104288
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1169,682,932 - 69,685,784 (-)Ensembl
RefSeq Acc Id: NM_001159505   ⟹   NP_001152977
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391169,573,403 - 69,576,380 (-)NCBI
GRCm381169,682,577 - 69,685,554 (-)ENTREZGENE
MGSCv371169,496,079 - 69,499,056 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_023517   ⟹   NP_076006
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391169,573,403 - 69,576,380 (-)NCBI
GRCm381169,682,577 - 69,685,554 (-)ENTREZGENE
MGSCv371169,496,079 - 69,499,056 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_076006   ⟸   NM_023517
- Peptide Label: isoform 1
- UniProtKB: Q9D777 (UniProtKB/Swiss-Prot),   Q5F2A4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001152977   ⟸   NM_001159505
- Peptide Label: isoform 2
- UniProtKB: Q9D777 (UniProtKB/Swiss-Prot),   Q5F2A4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000104288   ⟸   ENSMUST00000108648
RefSeq Acc Id: ENSMUSP00000018896   ⟸   ENSMUST00000018896
Protein Domains
TNF_2

Promoters
RGD ID:6822354
Promoter ID:MM_KWN:8109
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day2,   3T3L1_Day3,   BoneMarrow_0Hour,   BoneMarrow_4Hour,   Brain,   Kidney,   Liver,   Lung
Transcripts:NM_001159505,   NM_023517,   OTTMUST00000013437
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361169,499,124 - 69,499,624 (-)MPROMDB
RGD ID:8675204
Promoter ID:EPDNEW_M15633
Type:initiation region
Name:Tnfsf13_2
Description:Mus musculus tumor necrosis factor superfamily, member 13 , transcriptvariant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15634  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381169,685,297 - 69,685,357EPDNEW
RGD ID:8675206
Promoter ID:EPDNEW_M15634
Type:initiation region
Name:Tnfsf13_1
Description:Mus musculus tumor necrosis factor superfamily, member 13 , transcriptvariant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15633  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381169,685,527 - 69,685,587EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1916833 AgrOrtholog
Ensembl Genes ENSMUSG00000089669 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000018896 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000104288 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000018896 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000108648 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro TNF_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:69583 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1916833 ENTREZGENE
NCBI Gene 69583 ENTREZGENE
Pfam TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tnfsf13 PhenoGen
PROSITE TNF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART TNF UniProtKB/TrEMBL
Superfamily-SCOP SSF49842 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0U5J5N9_MOUSE UniProtKB/TrEMBL
  Q5F2A3_MOUSE UniProtKB/TrEMBL
  Q5F2A4 ENTREZGENE, UniProtKB/TrEMBL
  Q9D777 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9ERP1 UniProtKB/Swiss-Prot