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

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Gene: Traf5 (TNF receptor-associated factor 5) Rattus norvegicus
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Symbol: Traf5
Name: TNF receptor-associated factor 5
RGD ID: 1593883
Description: Predicted to enable identical protein binding activity; thioesterase binding activity; and ubiquitin protein ligase binding activity. Predicted to be involved in interleukin-17-mediated 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; cytoplasmic side of plasma membrane; and cytosol. Predicted to be part of CD40 receptor complex. Orthologous to human TRAF5 (TNF receptor associated factor 5); PARTICIPATES IN tumor necrosis factor mediated signaling pathway; INTERACTS WITH amphetamine; furosemide; oxaliplatin.
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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813106,100,921 - 106,149,724 (-)NCBIGRCr8
mRatBN7.213103,569,944 - 103,618,747 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13103,572,314 - 103,618,709 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13106,092,244 - 106,138,662 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013107,476,080 - 107,522,495 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013104,691,081 - 104,737,497 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013110,758,556 - 110,801,871 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13110,758,761 - 110,784,209 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013115,317,216 - 115,360,873 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera13103,011,066 - 103,057,720 (-)NCBICelera
Cytogenetic Map13q27NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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 (-)NCBIGRCr8
mRatBN7.213103,569,944 - 103,618,747 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13103,572,314 - 103,618,709 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13106,092,244 - 106,138,662 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013107,476,080 - 107,522,495 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013104,691,081 - 104,737,497 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013110,758,556 - 110,801,871 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13110,758,761 - 110,784,209 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013115,317,216 - 115,360,873 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
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 Ensembl1211,326,615 - 211,374,946 (+)EnsemblGRCh38hg38GRCh38
GRCh371211,499,977 - 211,548,288 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361209,566,580 - 209,614,911 (+)NCBINCBI36Build 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 Ensembl
GRCm381191,997,203 - 192,092,599 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1191,997,205 - 192,092,559 (-)EnsemblGRCm38mm10GRCm38
MGSCv371193,878,227 - 193,916,445 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv371193,821,088 - 193,823,851 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)EnsemblChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha79,387,019 - 9,406,432 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.079,487,603 - 9,536,016 (+)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624807878,275 - 921,683 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Traf5
167 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 11 25 9 11
Low 1 43 57 41 8 41 8 11 74 10 30 8
Below cutoff 2

Sequence


RefSeq 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
RefSeq Acc Id: ENSRNOT00000110424   ⟹   ENSRNOP00000096919
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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 ENSRNOP00000065556.3
  ENSRNOP00000096919
  ENSRNOP00000096919.1
RefSeq 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)
RefSeq 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 ENSRNOT00000071698.3 UniProtKB/TrEMBL
  ENSRNOT00000110424 ENTREZGENE
  ENSRNOT00000110424.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 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, UniProtKB/TrEMBL


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