Ufd1 (ubiquitin recognition factor in ER associated degradation 1) - Rat Genome Database

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Gene: Ufd1 (ubiquitin recognition factor in ER associated degradation 1) Rattus norvegicus
Analyze
Symbol: Ufd1
Name: ubiquitin recognition factor in ER associated degradation 1
RGD ID: 619822
Description: Enables ATPase binding activity and signaling receptor binding activity. Predicted to be involved in ERAD pathway; negative regulation of RIG-I signaling pathway; and negative regulation of type I interferon production. Part of UFD1-NPL4 complex and VCP-NPL4-UFD1 AAA ATPase complex. Human ortholog(s) of this gene implicated in DiGeorge syndrome and schizophrenia. Orthologous to human UFD1 (ubiquitin recognition factor in ER associated degradation 1); PARTICIPATES IN schizophrenia pathway; Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: UB fusion protein 1; ubiquitin fusion degradation 1 like; ubiquitin fusion degradation 1 like (yeast); ubiquitin fusion degradation 1-like; ubiquitin fusion degradation protein 1 homolog; ubiquitin recognition factor in ER-associated degradation protein 1; Ufd1l
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
mRatBN7.21182,161,618 - 82,185,107 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1182,161,619 - 82,185,087 (-)Ensembl
Rnor_6.01186,304,836 - 86,328,478 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,304,815 - 86,328,469 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01189,406,802 - 89,430,903 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1180,942,108 - 80,965,579 (-)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
1H-pyrazole  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,4,6-trinitrotoluene  (EXP)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
atrazine  (ISO)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
calyculin a  (ISO)
carbon nanotube  (ISO)
clofibrate  (EXP)
cobalt dichloride  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dibutyl phthalate  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
fenthion  (ISO)
finasteride  (EXP)
flutamide  (EXP)
furan  (EXP)
gentamycin  (EXP)
ivermectin  (ISO)
kojic acid  (ISO)
L-ethionine  (EXP)
leflunomide  (EXP)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
methylazoxymethanol  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
microcystin RR  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-nitrosomorpholine  (EXP)
nefazodone  (EXP)
nimesulide  (EXP)
omeprazole  (EXP)
paracetamol  (ISO)
permethrin  (EXP)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP)
quercetin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenite  (ISO)
sulindac  (EXP)
sunitinib  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
valdecoxib  (EXP)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (ISO)
cytosol  (IEA)
nucleus  (IEA)
UFD1-NPL4 complex  (IDA,ISO)
VCP-NPL4-UFD1 AAA ATPase complex  (IBA,IC,IDA,IPI,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Involvement of the p97-Ufd1-Npl4 complex in the regulated endoplasmic reticulum-associated degradation of inositol 1,4,5-trisphosphate receptors. Alzayady KJ, etal., J Biol Chem. 2005 Oct 14;280(41):34530-7. Epub 2005 Aug 15.
2. Distinct conformations of the protein complex p97-Ufd1-Npl4 revealed by electron cryomicroscopy. Bebeacua C, etal., Proc Natl Acad Sci U S A. 2012 Jan 24;109(4):1098-103. doi: 10.1073/pnas.1114341109. Epub 2012 Jan 9.
3. Absence of mutations in human ubiquitin fusion-degradation protein gene in tetralogy of Fallot. Chung MY, etal., J Mol Med. 2001 Jun;79(5-6):338-42.
4. Association study of a promoter polymorphism of UFD1L gene with schizophrenia. De Luca A, etal., Am J Med Genet 2001 Aug 8;105(6):529-33.
5. 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.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. A complex of mammalian ufd1 and npl4 links the AAA-ATPase, p97, to ubiquitin and nuclear transport pathways. Meyer HH, etal., EMBO J 2000 May 15;19(10):2181-92.
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. GOA pipeline RGD automated data pipeline
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. 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.
13. A molecular pathway revealing a genetic basis for human cardiac and craniofacial defects. Yamagishi H, etal., Science. 1999 Feb 19;283(5405):1158-61.
14. Function of the p97-Ufd1-Npl4 complex in retrotranslocation from the ER to the cytosol: dual recognition of nonubiquitinated polypeptide segments and polyubiquitin chains. Ye Y, etal., J Cell Biol. 2003 Jul 7;162(1):71-84.
Additional References at PubMed
PMID:11574150   PMID:16525503   PMID:17000876   PMID:18775783   PMID:19182904   PMID:21630459   PMID:24089527   PMID:25660456   PMID:26471729  


Genomics

Comparative Map Data
Ufd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21182,161,618 - 82,185,107 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1182,161,619 - 82,185,087 (-)Ensembl
Rnor_6.01186,304,836 - 86,328,478 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,304,815 - 86,328,469 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01189,406,802 - 89,430,903 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1180,942,108 - 80,965,579 (-)NCBICelera
Cytogenetic Map11q23NCBI
UFD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382219,449,911 - 19,479,193 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2219,449,911 - 19,479,202 (-)EnsemblGRCh38hg38GRCh38
GRCh372219,437,434 - 19,466,716 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362217,817,701 - 17,846,726 (-)NCBINCBI36hg18NCBI36
Build 342217,812,394 - 17,841,280NCBI
Celera223,289,721 - 3,318,998 (-)NCBI
Cytogenetic Map22q11.21NCBI
HuRef223,058,276 - 3,087,551 (-)NCBIHuRef
CHM1_12219,437,034 - 19,466,309 (-)NCBICHM1_1
T2T-CHM13v2.02219,826,739 - 19,856,026 (-)NCBI
Ufd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391618,630,486 - 18,654,011 (+)NCBIGRCm39mm39
GRCm39 Ensembl1618,630,529 - 18,654,011 (+)Ensembl
GRCm381618,811,736 - 18,835,261 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1618,811,779 - 18,835,261 (+)EnsemblGRCm38mm10GRCm38
MGSCv371618,812,387 - 18,835,354 (+)NCBIGRCm37mm9NCBIm37
MGSCv361618,725,889 - 18,748,818 (+)NCBImm8
Celera1619,386,351 - 19,409,318 (+)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1611.65NCBI
Ufd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544218,548,545 - 18,569,366 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544218,548,545 - 18,568,989 (+)NCBIChiLan1.0ChiLan1.0
UFD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12217,885,073 - 17,913,506 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2217,885,073 - 17,913,506 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0222,209,590 - 2,238,449 (-)NCBIMhudiblu_PPA_v0panPan3
UFD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12629,739,062 - 29,763,315 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2629,739,153 - 29,763,313 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2629,694,170 - 29,719,526 (+)NCBI
ROS_Cfam_1.02631,140,571 - 31,165,953 (+)NCBI
ROS_Cfam_1.0 Ensembl2631,140,615 - 31,165,955 (+)Ensembl
UMICH_Zoey_3.12629,187,885 - 29,213,241 (+)NCBI
UNSW_CanFamBas_1.02628,813,584 - 28,838,650 (+)NCBI
UU_Cfam_GSD_1.02629,900,203 - 29,925,588 (+)NCBI
Ufd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118139,333,947 - 139,358,936 (+)NCBI
SpeTri2.0NW_0049366193,395,130 - 3,419,704 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UFD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1451,113,713 - 51,133,072 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11451,113,858 - 51,132,820 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21454,680,894 - 54,689,406 (-)NCBISscrofa10.2Sscrofa10.2susScr3
UFD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1196,275,834 - 6,305,940 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl196,275,844 - 6,308,035 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666085627,687 - 657,884 (-)NCBIVero_WHO_p1.0
Ufd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624747110,090 - 132,097 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_004624747110,090 - 132,145 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D11Rat89  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,169,001 - 82,169,223 (+)MAPPERmRatBN7.2
Rnor_6.01186,312,220 - 86,312,439NCBIRnor6.0
Rnor_5.01189,414,186 - 89,414,405UniSTSRnor5.0
Celera1180,949,492 - 80,949,711UniSTS
SHRSP x BN Map1138.2699UniSTS
SHRSP x BN Map1138.2699RGD
FHH x ACI Map1157.2499RGD
Cytogenetic Map11p12UniSTS
RH134555  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,161,917 - 82,162,102 (+)MAPPERmRatBN7.2
Rnor_6.01186,305,136 - 86,305,320NCBIRnor6.0
Rnor_5.01189,407,102 - 89,407,286UniSTSRnor5.0
Celera1180,942,408 - 80,942,592UniSTS
RH 3.4 Map11697.2UniSTS
Cytogenetic Map11p12UniSTS
D18S1297  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,167,480 - 82,168,493 (+)MAPPERmRatBN7.2
Rnor_6.01186,310,699 - 86,311,711NCBIRnor6.0
Rnor_5.01189,412,665 - 89,413,677UniSTSRnor5.0
Celera1180,947,971 - 80,948,983UniSTS
Cytogenetic Map11p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116611332182169223Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116944607082846715Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)117695713183051965Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:312
Count of miRNA genes:205
Interacting mature miRNAs:242
Transcripts:ENSRNOT00000071493
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: ENSRNOT00000071493   ⟹   ENSRNOP00000067081
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1182,161,619 - 82,185,073 (-)Ensembl
Rnor_6.0 Ensembl1186,304,815 - 86,328,469 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095316   ⟹   ENSRNOP00000077930
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1182,161,621 - 82,185,040 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100452   ⟹   ENSRNOP00000084640
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1182,161,623 - 82,185,063 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118403   ⟹   ENSRNOP00000086445
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1182,162,344 - 82,185,087 (-)Ensembl
RefSeq Acc Id: NM_053418   ⟹   NP_445870
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21182,161,618 - 82,185,072 (-)NCBI
Rnor_6.01186,304,836 - 86,328,440 (-)NCBI
Rnor_5.01189,406,802 - 89,430,903 (-)NCBI
Celera1180,942,108 - 80,965,579 (-)RGD
Sequence:
RefSeq Acc Id: XM_008768904   ⟹   XP_008767126
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21182,161,618 - 82,185,107 (-)NCBI
Rnor_6.01186,304,836 - 86,328,478 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_445870 (Get FASTA)   NCBI Sequence Viewer  
  XP_008767126 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAG27535 (Get FASTA)   NCBI Sequence Viewer  
  AAI61818 (Get FASTA)   NCBI Sequence Viewer  
  EDL77960 (Get FASTA)   NCBI Sequence Viewer  
  Q9ES53 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_445870   ⟸   NM_053418
- UniProtKB: Q9ES53 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008767126   ⟸   XM_008768904
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000067081   ⟸   ENSRNOT00000071493
RefSeq Acc Id: ENSRNOP00000084640   ⟸   ENSRNOT00000100452
RefSeq Acc Id: ENSRNOP00000086445   ⟸   ENSRNOT00000118403
RefSeq Acc Id: ENSRNOP00000077930   ⟸   ENSRNOT00000095316

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9ES53-F1-model_v2 AlphaFold Q9ES53 1-307 view protein structure

Transcriptome

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

Promoters
RGD ID:13698297
Promoter ID:EPDNEW_R8820
Type:multiple initiation site
Name:Ufd1_1
Description:ubiquitin recognition factor in ER associated degradation 1
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_6.01186,328,434 - 86,328,494EPDNEW

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)
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
LN/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
M520/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
M520/NRrrcMcwi (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
MR/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
MWF/Hsd (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
PVG/Seac (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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
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)
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
WAG/RijCrl (2020)
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
WKY/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
WKY/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
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619822 AgrOrtholog
BIND 130678
  130682
  130684
  130685
BioCyc Gene G2FUF-20673 BioCyc
Ensembl Genes ENSRNOG00000047394 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000067081.2 UniProtKB/TrEMBL
  ENSRNOP00000077930.1 UniProtKB/TrEMBL
  ENSRNOP00000084640 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000086445.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071493.3 UniProtKB/TrEMBL
  ENSRNOT00000095316.1 UniProtKB/TrEMBL
  ENSRNOT00000100452 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000118403.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.40.50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9101868 IMAGE-MGC_LOAD
InterPro Ufd1-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ufd1-like_Nn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84478 UniProtKB/Swiss-Prot
MGC_CLONE MGC:187268 IMAGE-MGC_LOAD
NCBI Gene 84478 ENTREZGENE
PANTHER PTHR12555 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam UFD1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ufd1 PhenoGen
UniProt A0A8I5YCK4_RAT UniProtKB/TrEMBL
  A0A8I6A8U7_RAT UniProtKB/TrEMBL
  A0A8L2UP03_RAT UniProtKB/TrEMBL
  Q9ES53 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-07 Ufd1  ubiquitin recognition factor in ER associated degradation 1  Ufd1l  ubiquitin fusion degradation 1 like (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-08-29 Ufd1l  ubiquitin fusion degradation 1 like (yeast)  Ufd1l  ubiquitin fusion degradation 1-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Ufd1l  ubiquitin fusion degradation 1-like      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Ufd1l  ubiquitin fusion degradation 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction Ufd1/Npl4 and p47 form mutually exclusive complexes with cytosolic p97 633500