Ube2j1 (ubiquitin-conjugating enzyme E2, J1) - Rat Genome Database

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Gene: Ube2j1 (ubiquitin-conjugating enzyme E2, J1) Rattus norvegicus
Analyze
Symbol: Ube2j1
Name: ubiquitin-conjugating enzyme E2, J1
RGD ID: 1305067
Description: Predicted to have ubiquitin conjugating enzyme activity and ubiquitin protein ligase binding activity. Predicted to be involved in several processes, including cellular protein metabolic process; negative regulation of retrograde protein transport, ER to cytosol; and regulation of tumor necrosis factor production. Predicted to localize to nucleus. Orthologous to human UBE2J1 (ubiquitin conjugating enzyme E2 J1); PARTICIPATES IN Endoplasmic Reticulum-associated degradation pathway; Parkinson's disease pathway; ubiquitin/proteasome degradation pathway; INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC297961; ubiquitin-conjugating enzyme E2 J1; ubiquitin-conjugating enzyme E2, J1 (UBC6 homolog, yeast)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2547,422,513 - 47,441,476 (+)NCBI
Rnor_6.0 Ensembl548,274,477 - 48,290,658 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0548,274,387 - 48,292,699 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0552,858,636 - 52,875,428 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4549,317,881 - 49,337,258 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1549,318,023 - 49,337,593 (+)NCBI
Celera546,180,371 - 46,196,728 (+)NCBICelera
Cytogenetic Map5q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
COVID-19  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
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:11439185   PMID:21245296   PMID:22607976   PMID:24019521   PMID:24020373   PMID:25320092   PMID:25660456  


Genomics

Comparative Map Data
Ube2j1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2547,422,513 - 47,441,476 (+)NCBI
Rnor_6.0 Ensembl548,274,477 - 48,290,658 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0548,274,387 - 48,292,699 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0552,858,636 - 52,875,428 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4549,317,881 - 49,337,258 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1549,318,023 - 49,337,593 (+)NCBI
Celera546,180,371 - 46,196,728 (+)NCBICelera
Cytogenetic Map5q21NCBI
UBE2J1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl689,326,625 - 89,352,722 (-)EnsemblGRCh38hg38GRCh38
GRCh38689,326,625 - 89,353,155 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37690,036,344 - 90,062,441 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36690,093,063 - 90,119,338 (-)NCBINCBI36hg18NCBI36
Build 34690,093,063 - 90,119,338NCBI
Celera690,454,855 - 90,481,153 (-)NCBI
Cytogenetic Map6q15NCBI
HuRef687,253,169 - 87,279,755 (-)NCBIHuRef
CHM1_1690,134,135 - 90,160,247 (-)NCBICHM1_1
Ube2j1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39433,031,380 - 33,052,367 (+)NCBIGRCm39mm39
GRCm39 Ensembl433,031,416 - 33,052,363 (+)Ensembl
GRCm38433,031,380 - 33,052,367 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl433,031,416 - 33,052,363 (+)EnsemblGRCm38mm10GRCm38
MGSCv37433,118,400 - 33,139,339 (+)NCBIGRCm37mm9NCBIm37
MGSCv36433,360,038 - 33,380,977 (+)NCBImm8
Celera432,771,962 - 32,793,005 (+)NCBICelera
Cytogenetic Map4A5NCBI
Ube2j1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541116,074,551 - 16,091,570 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541116,076,647 - 16,091,554 (-)NCBIChiLan1.0ChiLan1.0
UBE2J1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1690,471,136 - 90,497,320 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl690,471,136 - 90,497,334 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0687,196,938 - 87,223,414 (-)NCBIMhudiblu_PPA_v0panPan3
UBE2J1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11248,542,432 - 48,570,716 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1248,545,396 - 48,571,467 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1248,349,259 - 48,378,318 (-)NCBI
ROS_Cfam_1.01249,351,242 - 49,380,336 (-)NCBI
UMICH_Zoey_3.11248,667,524 - 48,696,593 (-)NCBI
UNSW_CanFamBas_1.01248,566,337 - 48,595,404 (-)NCBI
UU_Cfam_GSD_1.01248,758,979 - 48,788,074 (-)NCBI
Ube2j1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494683,583,280 - 83,606,489 (-)NCBI
SpeTri2.0NW_0049365102,864,321 - 2,887,588 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBE2J1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl157,337,079 - 57,364,390 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1157,340,622 - 57,364,263 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2164,118,514 - 64,142,161 (-)NCBISscrofa10.2Sscrofa10.2susScr3
UBE2J1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11314,092,318 - 14,117,187 (-)NCBI
ChlSab1.1 Ensembl1314,090,789 - 14,116,887 (-)Ensembl
Ube2j1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247994,811,686 - 4,838,708 (+)NCBI

Position Markers
D5Got253  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0552,865,444 - 52,865,692NCBIRnor5.0
RGSC_v3.4549,327,830 - 49,328,275UniSTSRGSC3.4
Cytogenetic Map5q21UniSTS
RH131060  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2547,438,943 - 47,439,158 (+)MAPPER
Rnor_6.0548,290,167 - 48,290,381NCBIRnor6.0
Rnor_5.0552,874,937 - 52,875,151UniSTSRnor5.0
RGSC_v3.4549,336,767 - 49,336,981UniSTSRGSC3.4
Celera546,196,237 - 46,196,451UniSTS
RH 3.4 Map5250.6UniSTS
Cytogenetic Map5q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5189432042Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5193273395Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5152509878720537Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5166658771552720Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5325132948722188Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5863228553632285Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)59514842103580403Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512651967117554267Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51328888858288888Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51884791363847913Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51884791376608178Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52190436366904363Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52907889974078899Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52907889974078899Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52964166174641661Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52964166174641661Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531926122136640934Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53440240979402409Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53440240979402409Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53440240979402409Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)535225432108092802Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)535661945117554267Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53578875670742105Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535788756147487820Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540777918154732375Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54440427689432042Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)544404276134502294Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)547745646167946134Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:70
Count of miRNA genes:61
Interacting mature miRNAs:64
Transcripts:ENSRNOT00000041271
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.


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000041271   ⟹   ENSRNOP00000040441
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl548,274,485 - 48,290,658 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075992   ⟹   ENSRNOP00000068517
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl548,274,477 - 48,284,466 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076508   ⟹   ENSRNOP00000068125
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl548,290,061 - 48,290,408 (+)Ensembl
RefSeq Acc Id: NM_001106642   ⟹   NP_001100112
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2547,422,643 - 47,439,435 (+)NCBI
Rnor_6.0548,274,485 - 48,290,658 (+)NCBI
Rnor_5.0552,858,636 - 52,875,428 (+)NCBI
RGSC_v3.4549,317,881 - 49,337,258 (+)RGD
Celera546,180,371 - 46,196,728 (+)RGD
Sequence:
RefSeq Acc Id: XM_008763612   ⟹   XP_008761834
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2547,422,526 - 47,441,476 (+)NCBI
Rnor_6.0548,274,387 - 48,292,699 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763613   ⟹   XP_008761835
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0548,274,387 - 48,292,699 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039109427   ⟹   XP_038965355
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2547,422,526 - 47,441,476 (+)NCBI
RefSeq Acc Id: XM_039109428   ⟹   XP_038965356
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2547,422,513 - 47,441,476 (+)NCBI
RefSeq Acc Id: XM_039109429   ⟹   XP_038965357
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2547,422,520 - 47,439,185 (+)NCBI
RefSeq Acc Id: XM_039109430   ⟹   XP_038965358
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2547,422,513 - 47,441,476 (+)NCBI
RefSeq Acc Id: XM_039109431   ⟹   XP_038965359
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2547,422,513 - 47,441,476 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100112   ⟸   NM_001106642
- Sequence:
RefSeq Acc Id: XP_008761835   ⟸   XM_008763613
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008761834   ⟸   XM_008763612
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000040441   ⟸   ENSRNOT00000041271
RefSeq Acc Id: ENSRNOP00000068517   ⟸   ENSRNOT00000075992
RefSeq Acc Id: ENSRNOP00000068125   ⟸   ENSRNOT00000076508
RefSeq Acc Id: XP_038965356   ⟸   XM_039109428
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038965358   ⟸   XM_039109430
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038965359   ⟸   XM_039109431
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038965357   ⟸   XM_039109429
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038965355   ⟸   XM_039109427
- Peptide Label: isoform X1
Protein Domains
UBC core

Transcriptome

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

Promoters
RGD ID:13693621
Promoter ID:EPDNEW_R4137
Type:initiation region
Name:Ube2j1_1
Description:ubiquitin-conjugating enzyme E2, J1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0548,274,430 - 48,274,490EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305067 AgrOrtholog
Ensembl Genes ENSRNOG00000007434 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000040441 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068125 UniProtKB/TrEMBL
  ENSRNOP00000068517 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000041271 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000075992 UniProtKB/TrEMBL
  ENSRNOT00000076508 UniProtKB/TrEMBL
Gene3D-CATH 3.10.110.10 UniProtKB/TrEMBL
InterPro UBQ-conjugat/RWD-like UniProtKB/TrEMBL
  UBQ-conjugat_E2 UniProtKB/TrEMBL
NCBI Gene 297961 ENTREZGENE
Pfam UQ_con UniProtKB/TrEMBL
PhenoGen Ube2j1 PhenoGen
PROSITE UBIQUITIN_CONJUGAT_2 UniProtKB/TrEMBL
Superfamily-SCOP UBQ-conjugat/RWD-like UniProtKB/TrEMBL
UniProt A0A096MJH0_RAT UniProtKB/TrEMBL
  A0A096MKH4_RAT UniProtKB/TrEMBL
  D4ABY4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-01 Ube2j1  ubiquitin-conjugating enzyme E2, J1  Ube2j1  ubiquitin-conjugating enzyme E2, J1 (UBC6 homolog, yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-25 Ube2j1  ubiquitin-conjugating enzyme E2, J1 (UBC6 homolog, yeast)  Ube2j1  ubiquitin-conjugating enzyme E2, J1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ube2j1  ubiquitin-conjugating enzyme E2, J1   Ube2j1_predicted  ubiquitin-conjugating enzyme E2, J1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ube2j1_predicted  ubiquitin-conjugating enzyme E2, J1 (predicted)      Symbol and Name status set to approved 70820 APPROVED