Traf5 (TNF receptor-associated factor 5) - Rat Genome Database

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Gene: Traf5 (TNF receptor-associated factor 5) Rattus norvegicus
Analyze
Symbol: Traf5
Name: TNF receptor-associated factor 5
RGD ID: 1593883
Description: Predicted to enable several functions, including enzyme binding activity; identical protein binding activity; and signaling adaptor activity. Predicted to be involved in cell surface receptor signaling pathway; positive regulation of canonical NF-kappaB signal transduction; and regulation of gene expression. Predicted to act upstream of or within positive regulation of cell population proliferation and signal transduction. Predicted to be located in centrosome and cytosol. Predicted to be part of CD40 receptor complex. Predicted to be active in cytoplasm and cytoplasmic side of plasma membrane. Orthologous to human TRAF5 (TNF receptor associated factor 5); PARTICIPATES IN tumor necrosis factor mediated signaling pathway; INTERACTS WITH amphetamine; furosemide; glyphosate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC684173; similar to TNF receptor-associated factor 5
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813106,100,921 - 106,149,724 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl13106,103,291 - 106,149,707 (-)EnsemblGRCr8
mRatBN7.213103,569,944 - 103,618,747 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13103,572,314 - 103,618,709 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx13106,092,244 - 106,138,662 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013107,476,080 - 107,522,495 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013104,691,081 - 104,737,497 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.013110,758,556 - 110,801,871 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13110,758,761 - 110,784,209 (-)Ensemblrn6Rnor6.0
Rnor_5.013115,317,216 - 115,360,873 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera13103,011,066 - 103,057,720 (-)NCBICelera
Cytogenetic Map13q27NCBI
JBrowse:




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

Cellular Component
CD40 receptor complex  (IEA,ISO)
centrosome  (IEA,ISO)
cytoplasm  (IBA,IEA,ISO)
cytoplasmic side of plasma membrane  (IBA,IEA,ISO)
cytosol  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10449775   PMID:11279055   PMID:12296995   PMID:12761501   PMID:15121867   PMID:20614026   PMID:21399614   PMID:22484641   PMID:22493164   PMID:25416956  


Genomics

Comparative Map Data
Traf5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813106,100,921 - 106,149,724 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl13106,103,291 - 106,149,707 (-)EnsemblGRCr8
mRatBN7.213103,569,944 - 103,618,747 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13103,572,314 - 103,618,709 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx13106,092,244 - 106,138,662 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013107,476,080 - 107,522,495 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013104,691,081 - 104,737,497 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.013110,758,556 - 110,801,871 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13110,758,761 - 110,784,209 (-)Ensemblrn6Rnor6.0
Rnor_5.013115,317,216 - 115,360,873 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera13103,011,066 - 103,057,720 (-)NCBICelera
Cytogenetic Map13q27NCBI
TRAF5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381211,326,635 - 211,374,946 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1211,326,325 - 211,375,036 (+)Ensemblhg38GRCh38
GRCh371211,499,977 - 211,548,288 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361209,566,580 - 209,614,911 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1184,726,625 - 184,774,964 (+)NCBICelera
Cytogenetic Map1q32.3NCBI
HuRef1182,176,907 - 182,225,238 (+)NCBIHuRef
CHM1_11212,772,378 - 212,820,715 (+)NCBICHM1_1
T2T-CHM13v2.01210,572,246 - 210,620,555 (+)NCBIT2T-CHM13v2.0
Traf5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391191,729,164 - 191,776,899 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1191,729,166 - 191,776,868 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381191,997,203 - 192,092,599 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1191,997,205 - 192,092,559 (-)Ensemblmm10GRCm38
MGSCv371193,878,227 - 193,916,445 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv371193,821,088 - 193,823,851 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361193,755,802 - 193,793,206 (-)NCBIMGSCv36mm8
Celera1198,938,548 - 198,985,488 (-)NCBICelera
Cytogenetic Map1H6NCBI
cM Map197.11NCBI
Traf5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955489949,890 - 995,162 (-)Ensembl
ChiLan1.0NW_004955489935,601 - 995,162 (-)NCBIChiLan1.0ChiLan1.0
TRAF5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2138,032,824 - 38,081,986 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1137,997,851 - 38,056,535 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01186,889,615 - 186,938,416 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11191,754,064 - 191,802,081 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1191,754,652 - 191,802,075 (+)EnsemblpanPan2panpan1.1
TRAF5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.179,812,019 - 9,831,955 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl79,812,132 - 9,831,955 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha79,387,019 - 9,406,432 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.079,487,603 - 9,536,016 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl79,487,589 - 9,535,453 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.179,437,996 - 9,457,395 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.079,539,555 - 9,559,154 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.079,664,230 - 9,683,648 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Traf5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934464,688,642 - 64,731,605 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365571,928,822 - 1,971,896 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365571,930,791 - 1,971,853 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRAF5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9131,775,470 - 131,822,529 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.19131,772,810 - 131,822,555 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29144,808,707 - 144,828,506 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRAF5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12518,124,720 - 18,173,601 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2518,126,973 - 18,152,172 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605518,654,929 - 18,705,636 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Traf5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624807878,665 - 898,558 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624807878,275 - 921,683 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Traf5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11070,082,392 - 70,129,712 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Traf5
106 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:83
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000071698
Prediction methods:Microtar, Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)1365613454109350286Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1368983334109350286Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1367635937109350286Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1367635937109350286Rat
1576318Schws5Schwannoma susceptibility QTL 50.0351nervous system integrity trait (VT:0010566)post-insult time to trigeminal nerve neurilemmoma formation (CMO:0002019)1364497900109350286Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1364375743109350286Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)1371610804109350286Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1383286150109350286Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1367635937109350286Rat

Markers in Region
BI283102  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213103,597,976 - 103,598,147 (+)MAPPERmRatBN7.2
Rnor_6.013110,783,782 - 110,783,952NCBIRnor6.0
Rnor_5.013115,341,701 - 115,341,871UniSTSRnor5.0
Celera13103,036,937 - 103,037,107UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000071698   ⟹   ENSRNOP00000065556
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13103,572,517 - 103,618,709 (-)Ensembl
Rnor_6.0 Ensembl13110,758,761 - 110,784,209 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110424   ⟹   ENSRNOP00000096919
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl13106,103,291 - 106,149,707 (-)Ensembl
mRatBN7.2 Ensembl13103,572,314 - 103,618,704 (-)Ensembl
RefSeq Acc Id: NM_001398701   ⟹   NP_001385630
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813106,103,291 - 106,149,707 (-)NCBI
mRatBN7.213103,572,314 - 103,618,729 (-)NCBI
RefSeq Acc Id: NM_001398702   ⟹   NP_001385631
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813106,103,291 - 106,149,707 (-)NCBI
mRatBN7.213103,572,314 - 103,618,729 (-)NCBI
RefSeq Acc Id: XM_039091512   ⟹   XP_038947440
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813106,100,921 - 106,149,724 (-)NCBI
mRatBN7.213103,569,944 - 103,618,747 (-)NCBI
RefSeq Acc Id: XM_039091513   ⟹   XP_038947441
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr813106,100,921 - 106,149,241 (-)NCBI
mRatBN7.213103,569,944 - 103,618,300 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001385630 (Get FASTA)   NCBI Sequence Viewer  
  NP_001385631 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947440 (Get FASTA)   NCBI Sequence Viewer  
  XP_038947441 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000096919
  ENSRNOP00000096919.1
Ensembl Acc Id: ENSRNOP00000065556   ⟸   ENSRNOT00000071698
RefSeq Acc Id: XP_038947440   ⟸   XM_039091512
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AR28 (UniProtKB/TrEMBL),   M0R7W8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038947441   ⟸   XM_039091513
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AR28 (UniProtKB/TrEMBL),   M0R7W8 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000096919   ⟸   ENSRNOT00000110424
RefSeq Acc Id: NP_001385631   ⟸   NM_001398702
- UniProtKB: A0A8I6AR28 (UniProtKB/TrEMBL),   M0R7W8 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001385630   ⟸   NM_001398701
- UniProtKB: A0A8I6AR28 (UniProtKB/TrEMBL),   M0R7W8 (UniProtKB/TrEMBL)
Protein Domains
MATH   RING-type   TRAF-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R7W8-F1-model_v2 AlphaFold M0R7W8 1-558 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593883 AgrOrtholog
BioCyc Gene G2FUF-16813 BioCyc
Ensembl Genes ENSRNOG00000047957 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000110424 ENTREZGENE
  ENSRNOT00000110424.2 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2, Chain A UniProtKB/TrEMBL
InterPro MATH/TRAF_dom UniProtKB/TrEMBL
  TNF_rcpt--assoc_TRAF UniProtKB/TrEMBL
  TRAF-like UniProtKB/TrEMBL
  TRAF3/5_RING UniProtKB/TrEMBL
  TRAF5 UniProtKB/TrEMBL
  TRAF_MEP1_MATH_dom UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
  Znf_TRAF UniProtKB/TrEMBL
NCBI Gene 684173 ENTREZGENE
PANTHER PTHR10131 UniProtKB/TrEMBL
  PTHR10131:SF83 UniProtKB/TrEMBL
Pfam TRAF-mep_MATH UniProtKB/TrEMBL
  TRAF3_RING UniProtKB/TrEMBL
  zf-TRAF UniProtKB/TrEMBL
PhenoGen Traf5 PhenoGen
PIRSF TRAF UniProtKB/TrEMBL
PROSITE MATH UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
  ZF_TRAF UniProtKB/TrEMBL
RatGTEx ENSRNOG00000047957 RatGTEx
SMART MATH UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  TRAF domain-like UniProtKB/TrEMBL
UniProt A0A8I6AR28 ENTREZGENE, UniProtKB/TrEMBL
  M0R7W8 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-10-03 Traf5  TNF receptor-associated factor 5  LOC684173  similar to TNF receptor-associated factor 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC684173  similar to TNF receptor-associated factor 5      Symbol and Name status set to provisional 70820 PROVISIONAL