Traf3ip3 (TRAF3 interacting protein 3) - Rat Genome Database

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Gene: Traf3ip3 (TRAF3 interacting protein 3) Rattus norvegicus
Analyze
Symbol: Traf3ip3
Name: TRAF3 interacting protein 3
RGD ID: 1304848
Description: Orthologous to human TRAF3IP3 (TRAF3 interacting protein 3); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC360900; MGC108851; RGD1304848; similar to RIKEN cDNA 6030423D04; TRAF3-interacting JNK-activating modulator
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
mRatBN7.213104,694,802 - 104,719,655 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl13104,694,805 - 104,719,673 (-)Ensembl
Rnor_6.013111,892,744 - 111,917,368 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13111,892,760 - 111,917,587 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013116,447,648 - 116,473,153 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413109,009,596 - 109,034,265 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.113109,198,700 - 109,223,369 (-)NCBI
Celera13104,125,051 - 104,149,628 (-)NCBICelera
Cytogenetic Map13q27NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

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
3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data
Traf3ip3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213104,694,802 - 104,719,655 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl13104,694,805 - 104,719,673 (-)Ensembl
Rnor_6.013111,892,744 - 111,917,368 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13111,892,760 - 111,917,587 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013116,447,648 - 116,473,153 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413109,009,596 - 109,034,265 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.113109,198,700 - 109,223,369 (-)NCBI
Celera13104,125,051 - 104,149,628 (-)NCBICelera
Cytogenetic Map13q27NCBI
TRAF3IP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381209,756,053 - 209,782,310 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1209,756,032 - 209,782,320 (+)EnsemblGRCh38hg38GRCh38
GRCh371209,929,398 - 209,955,655 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361207,996,147 - 208,022,288 (+)NCBINCBI36hg18NCBI36
Celera1183,160,288 - 183,186,562 (+)NCBI
Cytogenetic Map1q32.2NCBI
HuRef1180,604,609 - 180,630,813 (+)NCBIHuRef
CHM1_11211,201,767 - 211,227,998 (+)NCBICHM1_1
T2T-CHM13v2.01209,002,813 - 209,029,078 (+)NCBI
Traf3ip3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391192,857,812 - 192,883,854 (-)NCBIGRCm39mm39
GRCm39 Ensembl1192,857,761 - 192,884,011 (-)Ensembl
GRCm381193,175,504 - 193,201,546 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1193,175,453 - 193,201,703 (-)EnsemblGRCm38mm10GRCm38
MGSCv371195,001,698 - 195,027,740 (-)NCBIGRCm37mm9NCBIm37
MGSCv361194,876,230 - 194,902,210 (-)NCBImm8
Celera1200,050,588 - 200,076,654 (-)NCBICelera
Cytogenetic Map1H6NCBI
Traf3ip3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554892,440,455 - 2,464,700 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554892,442,319 - 2,468,683 (-)NCBIChiLan1.0ChiLan1.0
TRAF3IP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11190,137,880 - 190,162,773 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1190,141,928 - 190,162,598 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01185,332,556 - 185,358,653 (+)NCBIMhudiblu_PPA_v0panPan3
TRAF3IP3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.178,421,163 - 8,444,399 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl78,421,788 - 8,444,397 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha77,998,513 - 8,021,530 (+)NCBI
ROS_Cfam_1.078,121,697 - 8,144,997 (+)NCBI
ROS_Cfam_1.0 Ensembl78,121,700 - 8,144,989 (+)Ensembl
UMICH_Zoey_3.178,051,436 - 8,074,680 (+)NCBI
UNSW_CanFamBas_1.078,148,468 - 8,171,704 (+)NCBI
UU_Cfam_GSD_1.078,290,781 - 8,309,799 (+)NCBI
UU_Cfam_GSD_1.078,209,919 - 8,233,156 (+)NCBI
Traf3ip3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934466,074,753 - 66,095,407 (-)NCBI
SpeTri2.0NW_0049365573,315,035 - 3,337,763 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRAF3IP3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9133,190,014 - 133,214,207 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19133,190,020 - 133,214,209 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRAF3IP3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12519,671,531 - 19,699,737 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2519,671,693 - 19,695,356 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605520,270,926 - 20,298,064 (-)NCBIVero_WHO_p1.0
Traf3ip3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248072,214,449 - 2,235,048 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248072,214,288 - 2,239,449 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D13Got107  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213104,715,188 - 104,715,352 (+)MAPPERmRatBN7.2
Rnor_6.013111,913,103 - 111,913,266NCBIRnor6.0
Rnor_5.013116,468,683 - 116,468,846UniSTSRnor5.0
RGSC_v3.413109,029,999 - 109,030,163RGDRGSC3.4
RGSC_v3.413109,030,000 - 109,030,163UniSTSRGSC3.4
RGSC_v3.113109,219,103 - 109,219,267RGD
RH 3.4 Map13769.8UniSTS
RH 3.4 Map13769.8RGD
RH 2.0 Map13780.1RGD
Cytogenetic Map13q27UniSTS
RH131251  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213104,694,963 - 104,695,163 (+)MAPPERmRatBN7.2
Rnor_6.013111,892,906 - 111,893,105NCBIRnor6.0
Rnor_5.013116,447,810 - 116,448,009UniSTSRnor5.0
RGSC_v3.413109,009,758 - 109,009,957UniSTSRGSC3.4
Celera13104,125,213 - 104,125,412UniSTS
RH 3.4 Map13795.6UniSTS
Cytogenetic Map13q27UniSTS
RH140005  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213104,698,091 - 104,698,287 (+)MAPPERmRatBN7.2
Rnor_6.013111,896,006 - 111,896,201NCBIRnor6.0
Rnor_5.013116,451,579 - 116,451,774UniSTSRnor5.0
RGSC_v3.413109,012,903 - 109,013,098UniSTSRGSC3.4
Celera13104,128,348 - 104,128,543UniSTS
RH 3.4 Map13758.0UniSTS
Cytogenetic Map13q27UniSTS


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

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:57
Count of miRNA genes:44
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000007649
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


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 8 19 10
Low 1 39 49 41 41 8 10 66 33 35 1 8
Below cutoff 4 1 8 2 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000007649   ⟹   ENSRNOP00000007649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13104,694,805 - 104,719,454 (-)Ensembl
Rnor_6.0 Ensembl13111,892,760 - 111,917,587 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114180   ⟹   ENSRNOP00000095182
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13104,694,805 - 104,719,454 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114304   ⟹   ENSRNOP00000094100
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13104,694,805 - 104,719,673 (-)Ensembl
RefSeq Acc Id: NM_001014132   ⟹   NP_001014154
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,694,802 - 104,719,454 (-)NCBI
Rnor_6.013111,892,744 - 111,917,368 (-)NCBI
Rnor_5.013116,447,648 - 116,473,153 (-)NCBI
RGSC_v3.413109,009,596 - 109,034,265 (-)RGD
Celera13104,125,051 - 104,149,628 (-)RGD
Sequence:
RefSeq Acc Id: XM_008769865   ⟹   XP_008768087
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,694,857 - 104,719,654 (-)NCBI
Rnor_6.013111,892,799 - 111,915,404 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039090944   ⟹   XP_038946872
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,694,859 - 104,719,655 (-)NCBI
RefSeq Acc Id: XM_039090945   ⟹   XP_038946873
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,694,857 - 104,719,653 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001014154 (Get FASTA)   NCBI Sequence Viewer  
  XP_008768087 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946872 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946873 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH89843 (Get FASTA)   NCBI Sequence Viewer  
  EDL95029 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001014154   ⟸   NM_001014132
- UniProtKB: Q5FVQ1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768087   ⟸   XM_008769865
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000007649   ⟸   ENSRNOT00000007649
RefSeq Acc Id: XP_038946873   ⟸   XM_039090945
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038946872   ⟸   XM_039090944
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000094100   ⟸   ENSRNOT00000114304
RefSeq Acc Id: ENSRNOP00000095182   ⟸   ENSRNOT00000114180

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5FVQ1-F1-model_v2 AlphaFold Q5FVQ1 1-513 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 111893005 111893006 G A snv COP/CrCrl (MCW & UW), ACI/EurMcwi (2019), MR/N (MCW), WN/N (MCW), ACI/N (2020), MR/N (2020), WN/N (2020), FHH/EurMcwi (2019), CDR, ACI/EurMcwi (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), ACI/EurMcwi (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), ACI/N (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 116447909 116447910 G A snv MR/N (KNAW), ZF (KyushuU), NIG-III/Hok (KyushuU), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), WN/N (KNAW), ZFDM (KyushuU), ACI/N (KNAW), ACI/EurMcwi (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), SDLEF7/Barth (UDEL), Crl:SD (UDEL)
13 116470054 116470055 C T snv LE/Stm (KyushuU), LE/Stm (SOLiD) (KNAW), LE/Stm (Illumina) (KNAW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 109009857 109009858 G A snv ACI/EurMcwi (MCW), FHH/EurMcwi (MCW), LCR/2Mco (UMich), FHL/EurMcwi (MCW), FHH/EurMcwi (MDC), ACI/N (KNAW), MR/N (KNAW), WN/N (KNAW), COP/CrCrl (MCW & UW), ACI/EurMcwi (ICL), FHH/EurMcwi (ICL), FHL/EurMcwi (ICL), HCR/1Mco (UMich), LCR/1Mco (UMich)
13 109031371 109031372 C T snv LE/Stm (KNAW), LE/Stm (ICL)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 104695063 104695064 G A snv ACI/EurMcwi (2019), ACI/N (2020), FHH/EurMcwi (2019), MR/N (2020), WN/N (2020)
13 104716560 104716561 C T snv FXLE16/Stm (2020), LEXF11/Stm (2020), LEXF4/Stm (2020), LE/Stm (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304848 AgrOrtholog
BioCyc Gene G2FUF-16788 BioCyc
Ensembl Genes ENSRNOG00000005565 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000007649 ENTREZGENE
  ENSRNOP00000007649.4 UniProtKB/TrEMBL
  ENSRNOP00000094100.1 UniProtKB/TrEMBL
  ENSRNOP00000095182.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000007649 ENTREZGENE
  ENSRNOT00000007649.6 UniProtKB/TrEMBL
  ENSRNOT00000114180.1 UniProtKB/TrEMBL
  ENSRNOT00000114304.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7368358 IMAGE-MGC_LOAD
KEGG Report rno:360900 UniProtKB/TrEMBL
MGC_CLONE MGC:108851 IMAGE-MGC_LOAD
NCBI Gene 360900 ENTREZGENE
PhenoGen Traf3ip3 PhenoGen
UniProt A0A8I6AKZ2_RAT UniProtKB/TrEMBL
  A0A8I6GKK8_RAT UniProtKB/TrEMBL
  Q5FVQ1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Traf3ip3  TRAF3 interacting protein 3  RGD1304848  similar to RIKEN cDNA 6030423D04  Symbol and Name updated 1299863 APPROVED
2005-12-06 RGD1304848  similar to RIKEN cDNA 6030423D04  RGD1304848_predicted  similar to RIKEN cDNA 6030423D04 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1304848_predicted  similar to RIKEN cDNA 6030423D04 (predicted)  LOC360900_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC360900_predicted  similar to RIKEN cDNA 6030423D04 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL