Ubd (ubiquitin like modifier D) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Ubd (ubiquitin like modifier D) Rattus norvegicus
Analyze
Symbol: Ubd (Ensembl: AC112568.1)
Name: ubiquitin like modifier D (Ensembl:ubiquitin D)
RGD ID: 69418
Description: Predicted to enable proteasome binding activity. Involved in response to hypoxia and response to ischemia. Predicted to be located in aggresome and cytoplasm. Predicted to be active in nucleus. Used to study myocardial infarction. Biomarker of myocardial infarction. Orthologous to human UBD (ubiquitin D); INTERACTS WITH (+)-schisandrin B; 1,3-dinitrobenzene; 1-chloro-2,4-dinitrobenzene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: diubiquitin; ubiquitin D; ubiquitin-like protein FAT10
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Ubdem1
Genetic Models: SD-Ubdem1
Candidate Gene For: Iddm37 Pur27 Pur30
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8201,390,734 - 1,392,685 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl201,390,600 - 1,413,965 (-)EnsemblGRCr8
mRatBN7.2201,385,487 - 1,387,438 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl201,385,864 - 1,408,639 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl201,383,424 - 1,389,406 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx201,438,896 - 1,440,847 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0201,442,376 - 1,444,327 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0201,383,905 - 1,385,856 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0201,876,175 - 1,878,126 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl201,876,173 - 1,897,814 (-)Ensemblrn6Rnor6.0
Rnor_5.0203,917,777 - 3,919,728 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4201,475,944 - 1,477,895 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera202,096,127 - 2,098,078 (-)NCBICelera
RGSC_v3.1201,475,953 - 1,477,895 (-)NCBI
Cytogenetic Map20p12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1-chloro-2,4-dinitrobenzene  (EXP)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
3,4-dichloroaniline  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3,5-diethoxycarbonyl-1,4-dihydrocollidine  (ISO)
3,7-dihydropurine-6-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (EXP)
4-hydroxyphenyl retinamide  (ISO)
7,12-dimethyltetraphene  (EXP)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-naphthoflavone  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
Butylbenzyl phthalate  (EXP)
Butylparaben  (ISO)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
CGP 52608  (ISO)
chlorohydrocarbon  (EXP)
cholesterol  (ISO)
choline  (ISO)
cisplatin  (ISO)
clofibrate  (EXP)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
dibenz[a,h]anthracene  (ISO)
dibenzo[a,l]pyrene  (ISO)
dicrotophos  (ISO)
diethyl maleate  (EXP)
diethylstilbestrol  (EXP)
dimethyl sulfoxide  (ISO)
dimethylarsinic acid  (EXP)
dioxygen  (EXP)
endosulfan  (EXP)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fructose  (ISO)
gadodiamide hydrate  (ISO)
Genipin  (ISO)
glucose  (ISO)
glycidol  (EXP,ISO)
GW 4064  (ISO)
indole-3-methanol  (EXP)
irinotecan  (EXP)
iron(III) nitrilotriacetate  (EXP)
L-methionine  (ISO)
leflunomide  (EXP)
lidocaine  (EXP)
lipopolysaccharide  (ISO)
malathion  (ISO)
manganese(II) chloride  (EXP)
mercaptopurine  (EXP)
methotrexate  (ISO)
methylmercury chloride  (EXP)
methylparaben  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-methyl-N'-nitro-N-nitrosoguanidine  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (ISO)
naphthalene  (EXP)
nickel sulfate  (ISO)
O-methyleugenol  (EXP)
ochratoxin A  (EXP)
oxaliplatin  (EXP)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium bromate  (EXP)
progesterone  (ISO)
promethazine  (EXP)
propiconazole  (ISO)
purine-6-thiol  (EXP)
quercetin  (ISO)
quinolin-8-ol  (ISO)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
silicon dioxide  (EXP,ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
tacrolimus hydrate  (ISO)
testosterone  (EXP)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
titanium dioxide  (EXP,ISO)
topotecan  (EXP)
trichloroethene  (EXP,ISO)
trimellitic anhydride  (EXP)
tris(2-butoxyethyl) phosphate  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (EXP)
valproic acid  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
aggresome  (ISO,ISS)
cytoplasm  (IEA,ISO,ISS)
nucleoplasm  (ISO)
nucleus  (IBA,IEA,ISO,ISS)

Molecular Function
proteasome binding  (IBA,IEA,ISO,ISS)
protein binding  (ISO)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Identification and analysis of a novel member of the ubiquitin family expressed in dendritic cells and mature B cells. Bates EE, etal., Eur J Immunol 1997 Oct;27(10):2471-7.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Different roles of FAT10, FOXO1, and ADRA2A in hepatocellular carcinoma tumorigenesis in patients with alcoholic steatohepatitis (ASH) vs non-alcoholic steatohepatitis (NASH). Jia Y, etal., Exp Mol Pathol. 2018 Aug;105(1):144-149. doi: 10.1016/j.yexmp.2018.07.005. Epub 2018 Jul 17.
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
10. Profiling and selection of genes differentially expressed in the pylorus of rat strains with different proliferative responses and stomach cancer susceptibility. Yamashita S, etal., Carcinogenesis. 2002 Jun;23(6):923-8.
11. FAT10 attenuates hypoxia-induced cardiomyocyte apoptosis by stabilizing caveolin-3. Zhou Q, etal., J Mol Cell Cardiol. 2018 Mar;116:115-124. doi: 10.1016/j.yjmcc.2018.02.008. Epub 2018 Feb 10.
Additional References at PubMed
PMID:11445583   PMID:12730673   PMID:15060004   PMID:15831455   PMID:16495226   PMID:16495380   PMID:16707496   PMID:16782901   PMID:17889673   PMID:19028597   PMID:19033385   PMID:19959714  
PMID:21601015   PMID:23416168   PMID:24452267   PMID:33307094  


Genomics

Comparative Map Data
Ubd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8201,390,734 - 1,392,685 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl201,390,600 - 1,413,965 (-)EnsemblGRCr8
mRatBN7.2201,385,487 - 1,387,438 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl201,385,864 - 1,408,639 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl201,383,424 - 1,389,406 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx201,438,896 - 1,440,847 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0201,442,376 - 1,444,327 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0201,383,905 - 1,385,856 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0201,876,175 - 1,878,126 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl201,876,173 - 1,897,814 (-)Ensemblrn6Rnor6.0
Rnor_5.0203,917,777 - 3,919,728 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4201,475,944 - 1,477,895 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera202,096,127 - 2,098,078 (-)NCBICelera
RGSC_v3.1201,475,953 - 1,477,895 (-)NCBI
Cytogenetic Map20p12NCBI
UBD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38629,555,515 - 29,559,732 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl629,555,515 - 29,559,732 (-)Ensemblhg38GRCh38
GRCh37629,523,292 - 29,527,509 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36629,631,387 - 29,635,681 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34629,631,386 - 29,635,681NCBI
Celera631,129,472 - 31,133,785 (-)NCBICelera
Cytogenetic Map6p22.1NCBI
HuRef629,330,776 - 29,334,782 (-)NCBIHuRef
CHM1_1629,525,538 - 29,529,852 (-)NCBICHM1_1
T2T-CHM13v2.0629,430,199 - 29,434,416 (-)NCBIT2T-CHM13v2.0
Ubd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391737,504,783 - 37,506,992 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1737,504,783 - 37,506,986 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381737,193,892 - 37,196,101 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1737,193,892 - 37,196,095 (+)Ensemblmm10GRCm38
MGSCv371737,330,837 - 37,333,046 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361736,801,615 - 36,803,894 (+)NCBIMGSCv36mm8
Celera1740,616,710 - 40,618,919 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1719.16NCBI
Ubd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495558329,438 - 31,555 (-)Ensembl
ChiLan1.0NW_00495558329,438 - 29,873 (-)NCBIChiLan1.0ChiLan1.0
UBD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2544,174,991 - 44,179,180 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1640,138,320 - 40,142,544 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0629,359,680 - 29,364,014 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1630,018,444 - 30,022,814 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl630,018,444 - 30,022,814 (-)EnsemblpanPan2panpan1.1
UBD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13526,426,919 - 26,436,189 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
ROS_Cfam_1.03526,734,293 - 26,741,905 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UNSW_CanFamBas_1.03526,451,220 - 26,457,222 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03527,920,623 - 27,928,239 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ubd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494632,370,418 - 32,400,704 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367231,218,258 - 1,221,451 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049367231,218,621 - 1,221,070 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl722,500,601 - 22,515,602 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1722,501,130 - 22,502,883 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2725,330,502 - 25,332,256 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UBD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11743,061,243 - 43,065,135 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1743,061,826 - 43,064,869 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604429,083,461 - 29,084,403 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ubd
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11810,141,790 - 10,143,677 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ubd
36 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:13
Count of miRNA genes:13
Interacting mature miRNAs:13
Transcripts:ENSRNOT00000000995
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2016693431Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)2016693431Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2013629303Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat

Markers in Region
RH130544  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2201,385,682 - 1,385,887 (+)MAPPERmRatBN7.2
Rnor_6.0201,876,371 - 1,876,575NCBIRnor6.0
Rnor_5.0203,917,973 - 3,918,177UniSTSRnor5.0
RGSC_v3.4201,476,140 - 1,476,344UniSTSRGSC3.4
Celera202,096,323 - 2,096,527UniSTS
RH 3.4 Map203.2UniSTS
Cytogenetic Map20p12UniSTS
D9S1880  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2201,385,390 - 1,386,263 (+)MAPPERmRatBN7.2
Rnor_6.0201,876,079 - 1,876,951NCBIRnor6.0
Rnor_5.0203,917,681 - 3,918,553UniSTSRnor5.0
RGSC_v3.4201,475,848 - 1,476,720UniSTSRGSC3.4
Celera202,096,031 - 2,096,903UniSTS
Cytogenetic Map20p12UniSTS


Genetic Models
This gene Ubd is modified in the following models/strains:
SD-Ubdem1    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 10 39 81 69 68 37 90 37 6 290 158 9 54 71 78 31 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000000994   ⟹   ENSRNOP00000086222
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl201,383,424 - 1,389,406 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000000995   ⟹   ENSRNOP00000000995
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl201,390,740 - 1,392,685 (-)Ensembl
mRatBN7.2 Ensembl201,385,493 - 1,387,438 (-)Ensembl
Rnor_6.0 Ensembl201,876,173 - 1,878,126 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000079061
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl201,385,864 - 1,408,639 (-)Ensembl
Rnor_6.0 Ensembl201,876,552 - 1,897,814 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120866   ⟹   ENSRNOP00000100092
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl201,390,600 - 1,406,642 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000122998   ⟹   ENSRNOP00000100289
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl201,390,744 - 1,413,965 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000123439   ⟹   ENSRNOP00000107425
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl201,390,602 - 1,413,965 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000142019   ⟹   ENSRNOP00000100480
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl201,390,753 - 1,413,484 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000167230   ⟹   ENSRNOP00000105889
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl201,390,746 - 1,406,601 (-)Ensembl
RefSeq Acc Id: NM_053299   ⟹   NP_445751
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8201,390,734 - 1,392,685 (-)NCBI
mRatBN7.2201,385,487 - 1,387,438 (-)NCBI
Rnor_6.0201,876,175 - 1,878,126 (-)NCBI
Rnor_5.0203,917,777 - 3,919,728 (-)NCBI
RGSC_v3.4201,475,944 - 1,477,895 (-)RGD
Celera202,096,127 - 2,098,078 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_445751 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAC42833 (Get FASTA)   NCBI Sequence Viewer  
  CAE84074 (Get FASTA)   NCBI Sequence Viewer  
  EDL84635 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000000995
GenBank Protein Q921A3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_445751   ⟸   NM_053299
- UniProtKB: Q6MFX3 (UniProtKB/Swiss-Prot),   Q921A3 (UniProtKB/Swiss-Prot),   A0A0G2JSG8 (UniProtKB/TrEMBL),   A6KR54 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000000995   ⟸   ENSRNOT00000000995
Ensembl Acc Id: ENSRNOP00000086222   ⟸   ENSRNOT00000000994
Ensembl Acc Id: ENSRNOP00000107425   ⟸   ENSRNOT00000123439
Ensembl Acc Id: ENSRNOP00000105889   ⟸   ENSRNOT00000167230
Ensembl Acc Id: ENSRNOP00000100480   ⟸   ENSRNOT00000142019
Ensembl Acc Id: ENSRNOP00000100289   ⟸   ENSRNOT00000122998
Ensembl Acc Id: ENSRNOP00000100092   ⟸   ENSRNOT00000120866
Protein Domains
Ubiquitin-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q921A3-F1-model_v2 AlphaFold Q921A3 1-161 view protein structure

Transcriptome

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

Promoters
RGD ID:13701266
Promoter ID:EPDNEW_R11790
Type:single initiation site
Name:Ubd_1
Description:ubiquitin D
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_6.0201,878,087 - 1,878,147EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69418 AgrOrtholog
BioCyc Gene G2FUF-4995 BioCyc
Ensembl Genes ENSRNOG00000000767 Ensembl, ENTREZGENE
  ENSRNOG00000000768 Ensembl
Ensembl Transcript ENSRNOT00000000995 ENTREZGENE
Gene3D-CATH Phosphatidylinositol 3-kinase Catalytic Subunit, Chain A, domain 1 UniProtKB/Swiss-Prot
InterPro Ubiquitin UniProtKB/Swiss-Prot
  Ubiquitin-like_domsf UniProtKB/Swiss-Prot
  Ubiquitin_D UniProtKB/Swiss-Prot
  Ubiquitin_dom UniProtKB/Swiss-Prot
KEGG Report rno:29168 UniProtKB/Swiss-Prot
NCBI Gene 29168 ENTREZGENE
PANTHER PTHR47731 UniProtKB/Swiss-Prot
  UBIQUITIN D UniProtKB/Swiss-Prot
Pfam ubiquitin UniProtKB/Swiss-Prot
PhenoGen Ubd PhenoGen
PRINTS UBIQUITIN UniProtKB/Swiss-Prot
PROSITE UBIQUITIN_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000000767 RatGTEx
  ENSRNOG00000000768 RatGTEx
SMART UBQ UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54236 UniProtKB/Swiss-Prot
TIGR TC235459
UniProt A0A0G2JSG8 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LG74_RAT UniProtKB/TrEMBL
  A0ABK0LGW8_RAT UniProtKB/TrEMBL
  A6KR54 ENTREZGENE, UniProtKB/TrEMBL
  Q6MFX3 ENTREZGENE
  Q921A3 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6MFX3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Ubd  ubiquitin D       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_mapping found in the major histocompatibility RT1 complex 1300431