Tnfsfm13 (tumor necrosis factor (ligand) superfamily, membrane-bound member 13) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Tnfsfm13 (tumor necrosis factor (ligand) superfamily, membrane-bound member 13) Mus musculus
Analyze
Symbol: Tnfsfm13
Name: tumor necrosis factor (ligand) superfamily, membrane-bound member 13
RGD ID: 2313455
MGI Page MGI
Description: Is expressed in superior cervical ganglion. Orthologous to human TNFSF12-TNFSF13 (TNFSF12-TNFSF13 readthrough).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Tnfsf12-Tnfsf13; Tnfsf12-Tnfsf13 readthrough transcript; Tnfsf12Tnfsf13; tumor necrosis factor (ligand) superfamily, member 12-member 13; TWE-; TWE-PRIL
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,573,403 - 69,586,924 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1169,573,403 - 69,586,924 (-)EnsemblGRCm39 Ensembl
GRCm381169,682,577 - 69,696,098 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,682,577 - 69,696,098 (-)EnsemblGRCm38mm10GRCm38
MGSCv371169,496,079 - 69,509,499 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361170,266,684 - 70,280,104 (-)NCBIMGSCv36mm8
MGSCv361169,498,772 - 69,512,192 (-)NCBIMGSCv36mm8
Cytogenetic Map11B3NCBI
cM Map1142.86NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12411489   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:18799693   PMID:21873635   PMID:30337376  


Genomics

Comparative Map Data
Tnfsfm13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,573,403 - 69,586,924 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1169,573,403 - 69,586,924 (-)EnsemblGRCm39 Ensembl
GRCm381169,682,577 - 69,696,098 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,682,577 - 69,696,098 (-)EnsemblGRCm38mm10GRCm38
MGSCv371169,496,079 - 69,509,499 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361170,266,684 - 70,280,104 (-)NCBIMGSCv36mm8
MGSCv361169,498,772 - 69,512,192 (-)NCBIMGSCv36mm8
Cytogenetic Map11B3NCBI
cM Map1142.86NCBI
TNFSF12-TNFSF13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38177,549,058 - 7,561,601 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl177,549,099 - 7,561,601 (+)EnsemblGRCh38hg38GRCh38
GRCh37177,452,375 - 7,464,918 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36177,393,140 - 7,405,649 (+)NCBINCBI36Build 36hg18NCBI36
Celera177,478,753 - 7,491,248 (+)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef177,333,866 - 7,359,110 (+)NCBIHuRef
CHM1_1177,461,331 - 7,473,887 (+)NCBICHM1_1
T2T-CHM13v2.0177,453,339 - 7,465,862 (+)NCBIT2T-CHM13v2.0

Variants

.
Variants in Tnfsfm13
447 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:887
Count of miRNA genes:430
Interacting mature miRNAs:497
Transcripts:ENSMUST00000094070, ENSMUST00000108649, ENSMUST00000174159
Prediction methods:Microtar, 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.


QTLs in Region (GRCm39)
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)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4141875Etax9_methanol induced ataxia 9 (mouse)Not determined5528498572209927Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
10053682Eae45_mexperimental allergic encephalomyelitis susceptibility 45 (mouse)Not determined115849055574754758Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116331940781830473Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116707819179813912Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
36049778Ars6_mantibody response to SARS-CoV 6, day 15, IgM (mouse)116899082672490826Mouse
36049779Ars7_mantibody response to SARS-CoV 7, day 29, IgG1 (mouse)116899082672490826Mouse
36049784Ars8_mantibody response to SARS-CoV 8, day 29, IgG2a+IgG2c (mouse)116899082672490826Mouse
36049785Ars9_mantibody response to SARS-CoV 9, day 29, IgM (mouse)116899082672490826Mouse
36049786Ars10_mantibody response to SARS-CoV 10, 4 days post-rechallenge, IgG2a+IgG2c (mouse)116899082672490826Mouse
36049787Ars11_mantibody response to SARS-CoV 11, 4 days post-rechallenge, IgM (mouse)116899082672490826Mouse
36049788Ars1_mantibody response to SARS-CoV 1, day 7, IgG1 (mouse)116899082672490826Mouse
36049789Ars2_mantibody response to SARS-CoV 2, day 7, IgG2a+IgG2c (mouse)116899082672490826Mouse
36049790Ars3_mantibody response to SARS-CoV 3, day 7, IgG2b (mouse)116899082672490826Mouse
36049791Ars4_mantibody response to SARS-CoV 4, day 7, IgG3 (mouse)116899082672490826Mouse
36049792Ars5_mantibody response to SARS-CoV 5, day 7, IgM (mouse)116899082672490826Mouse
35673314Ari2_mantibody response to influenza 2, day 10, IgG3 (mouse)116899082672490826Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000108649   ⟹   ENSMUSP00000104289
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1169,574,057 - 69,586,635 (-)Ensembl
GRCm38.p6 Ensembl1169,683,231 - 69,695,809 (-)Ensembl
RefSeq Acc Id: ENSMUST00000174159   ⟹   ENSMUSP00000133951
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1169,573,874 - 69,586,636 (-)Ensembl
GRCm38.p6 Ensembl1169,683,048 - 69,695,810 (-)Ensembl
RefSeq Acc Id: ENSMUST00000180587   ⟹   ENSMUSP00000137973
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1169,573,403 - 69,586,924 (-)Ensembl
GRCm38.p6 Ensembl1169,682,577 - 69,696,098 (-)Ensembl
RefSeq Acc Id: NM_001034097   ⟹   NP_001029269
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391169,573,403 - 69,586,924 (-)NCBI
GRCm381169,682,577 - 69,696,098 (-)ENTREZGENE
MGSCv371169,496,079 - 69,509,499 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001159503   ⟹   NP_001152975
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391169,573,403 - 69,586,924 (-)NCBI
GRCm381169,682,577 - 69,696,098 (-)ENTREZGENE
MGSCv371169,496,079 - 69,509,499 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001029269 (Get FASTA)   NCBI Sequence Viewer  
  NP_001152975 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH96441 (Get FASTA)   NCBI Sequence Viewer  
  BAC31897 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000104289.2
  ENSMUSP00000133951
  ENSMUSP00000133951.2
  ENSMUSP00000137973
  ENSMUSP00000137973.2
RefSeq Acc Id: NP_001029269   ⟸   NM_001034097
- Peptide Label: isoform a
- UniProtKB: Q8BXS2 (UniProtKB/TrEMBL),   B0QZJ0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001152975   ⟸   NM_001159503
- Peptide Label: isoform c
- UniProtKB: Q5F2A1 (UniProtKB/TrEMBL),   B0QZJ0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000133951   ⟸   ENSMUST00000174159
RefSeq Acc Id: ENSMUSP00000104289   ⟸   ENSMUST00000108649
RefSeq Acc Id: ENSMUSP00000137973   ⟸   ENSMUST00000180587
Protein Domains
TNF family profile

Promoters
RGD ID:6846942
Promoter ID:MM_ACW:7837
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour
Transcripts:TNFSF12-TNFSF13ANDTNFSF13.GSEP07
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361169,500,331 - 69,500,831 (-)MPROMDB
RGD ID:6822397
Promoter ID:MM_KWN:8110
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:ENSMUST00000094070,   ENSMUST00000108649,   NM_001034097,   OTTMUST00000013428,   OTTMUST00000013430,   UC007JRF.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361169,509,016 - 69,509,572 (-)MPROMDB
RGD ID:8675208
Promoter ID:EPDNEW_M15635
Type:initiation region
Name:Tnfsfm13_1
Description:Mus musculus tumor necrosis factor superfamily, membrane-boundmember 13 , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381169,696,069 - 69,696,129EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3845075 AgrOrtholog
Ensembl Genes ENSMUSG00000018752 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000108649.3 UniProtKB/TrEMBL
  ENSMUST00000174159 ENTREZGENE
  ENSMUST00000174159.8 UniProtKB/TrEMBL
  ENSMUST00000180587 ENTREZGENE
  ENSMUST00000180587.8 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.40 UniProtKB/TrEMBL
InterPro TNF UniProtKB/TrEMBL
  TNF_CS UniProtKB/TrEMBL
  Tumour_necrosis_fac-like UniProtKB/TrEMBL
KEGG Report mmu:619441 UniProtKB/TrEMBL
MGD MGI:3845075 ENTREZGENE
NCBI Gene 619441 ENTREZGENE
PANTHER PROTEIN EIGER UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 12 UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 13 UniProtKB/TrEMBL
Pfam TNF UniProtKB/TrEMBL
PhenoGen Tnfsfm13 PhenoGen
PROSITE PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
  TNF_1 UniProtKB/TrEMBL
  TNF_2 UniProtKB/TrEMBL
SMART TNF UniProtKB/TrEMBL
Superfamily-SCOP TNF_like UniProtKB/TrEMBL
UniProt B0QZJ0 ENTREZGENE, UniProtKB/TrEMBL
  Q5F2A1 ENTREZGENE, UniProtKB/TrEMBL
  Q8BXS2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-11-04 Tnfsfm13  tumor necrosis factor (ligand) superfamily, membrane-bound member 13  Tnfsf12Tnfsf13  Tnfsf12-Tnfsf13 readthrough transcript  Symbol and/or name change 5135510 APPROVED
2013-11-26 Tnfsf12Tnfsf13  Tnfsf12-Tnfsf13 readthrough transcript  BC096441  cDNA sequence BC096441  Symbol and/or name change 5135510 APPROVED
2011-07-27 BC096441  cDNA sequence BC096441  Tnfsf12-Tnfsf13  Tnfsf12-tnfsf13 readthrough transcript  Symbol and/or name change 5135510 APPROVED