Uba52 (ubiquitin A-52 residue ribosomal protein fusion product 1) - Rat Genome Database

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Gene: Uba52 (ubiquitin A-52 residue ribosomal protein fusion product 1) Rattus norvegicus
Analyze
Symbol: Uba52 (Ensembl: Kxd1)
Name: ubiquitin A-52 residue ribosomal protein fusion product 1 (Ensembl:KxDL motif containing 1)
RGD ID: 68344
Description: Predicted to enable protein tag and ubiquitin protein ligase binding activity. Predicted to be a structural constituent of ribosome. Involved in response to insecticide. Located in cytoplasm and nucleus. Part of cytosolic large ribosomal subunit. Orthologous to human UBA52 (ubiquitin A-52 residue ribosomal protein fusion product 1); PARTICIPATES IN ribosome biogenesis pathway; translation pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3H-1,2-dithiole-3-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 60S ribosomal protein L40; CEP52; Rps27a; Ubb; ubiquitin; ubiquitin-60S ribosomal protein L40
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
mRatBN7.21618,918,614 - 18,920,807 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1618,900,616 - 18,920,807 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1618,960,438 - 18,962,595 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01620,093,260 - 20,095,416 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01619,013,400 - 19,015,557 (+)NCBIRnor_WKY
Rnor_6.01620,668,925 - 20,671,127 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,668,971 - 20,671,127 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,524,450 - 20,526,606 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,425,401 - 19,427,557 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11619,425,406 - 19,427,555 (+)NCBI
Celera1619,110,027 - 19,112,183 (+)NCBICelera
Cytogenetic Map16p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17beta-estradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (EXP)
aluminium atom  (ISO)
aluminium(0)  (ISO)
amiodarone  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
cannabidiol  (ISO)
chloropicrin  (ISO)
chromium(6+)  (ISO)
clofibrate  (EXP)
clomipramine  (EXP)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
dibutyl phthalate  (EXP)
dinophysistoxin 1  (ISO)
disodium selenite  (ISO)
elemental selenium  (ISO)
enzalutamide  (ISO)
ethanol  (ISO)
fenpyroximate  (ISO)
fenthion  (ISO)
flavonoids  (EXP)
flutamide  (EXP)
furan  (EXP)
gallic acid  (ISO)
haloperidol  (ISO)
hydralazine  (ISO)
imipramine  (EXP)
ivermectin  (ISO)
ketoconazole  (EXP)
L-ethionine  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
methidathion  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
omeprazole  (EXP)
parathion  (ISO)
permethrin  (EXP)
picoxystrobin  (ISO)
pirinixic acid  (EXP)
potassium dichromate  (ISO)
pyrimidifen  (ISO)
rotenone  (ISO)
selenium atom  (ISO)
silicon dioxide  (EXP)
Soman  (EXP)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Structures of the human and Drosophila 80S ribosome. Anger AM, etal., Nature. 2013 May 2;497(7447):80-5. doi: 10.1038/nature12104.
2. Ubiquitin fusion proteins are overexpressed in colon cancer but not in gastric cancer. Barnard GF, etal., Biochim Biophys Acta. 1995 Dec 12;1272(3):147-53.
3. The carboxyl extensions of two rat ubiquitin fusion proteins are ribosomal proteins S27a and L40. Chan YL, etal., Biochem Biophys Res Commun 1995 Oct 13;215(2):682-90.
4. Characterization of diabetic nephropathy by urinary proteomic analysis: identification of a processed ubiquitin form as a differentially excreted protein in diabetic nephropathy patients. Dihazi H, etal., Clin Chem. 2007 Sep;53(9):1636-45. Epub 2007 Jul 18.
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. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. The cDNA for the ubiquitin-52-amino-acid fusion protein from rat encodes a previously unidentified 60 S ribosomal subunit protein. Redman KL and Burris GW, Biochem J 1996 Apr 1;315 ( Pt 1):315-21.
8. GOA pipeline RGD automated data pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
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. Isolation and functional analysis of mouse UbA52 gene and its relevance to diabetic nephropathy. Sun L, etal., J Biol Chem. 2002 Aug 16;277(33):29953-62. Epub 2002 May 24.
14. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
15. The localization of proteins encoded by CRYM, KIAA1199, UBA52, COL9A3, and COL9A1, genes highly expressed in the cochlea. Usami S, etal., Neuroscience. 2008 Jun 12;154(1):22-8. doi: 10.1016/j.neuroscience.2008.03.018. Epub 2008 Mar 19.
16. Proteomic analysis for early neurodegenerative biomarker detection in an animal model. Vincenzetti S, etal., Biochimie. 2016 Feb;121:79-86. doi: 10.1016/j.biochi.2015.11.026. Epub 2015 Nov 26.
17. Ubiquitin and ubiquitin-conjugated protein expression in the rat cerebral cortex and hippocampus following traumatic brain injury (TBI). Yao X, etal., Brain Res. 2007 Nov 28;1182:116-22. Epub 2007 Sep 14.
Additional References at PubMed
PMID:8018730   PMID:8031840   PMID:9219540   PMID:10559001   PMID:15489334   PMID:16452087   PMID:16502470   PMID:17634366   PMID:17897319   PMID:19190083   PMID:21630459   PMID:22043315  
PMID:23376485   PMID:23533145   PMID:24930395   PMID:26316108   PMID:31904090   PMID:33609735  


Genomics

Comparative Map Data
Uba52
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21618,918,614 - 18,920,807 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1618,900,616 - 18,920,807 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1618,960,438 - 18,962,595 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01620,093,260 - 20,095,416 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01619,013,400 - 19,015,557 (+)NCBIRnor_WKY
Rnor_6.01620,668,925 - 20,671,127 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,668,971 - 20,671,127 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,524,450 - 20,526,606 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,425,401 - 19,427,557 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11619,425,406 - 19,427,555 (+)NCBI
Celera1619,110,027 - 19,112,183 (+)NCBICelera
Cytogenetic Map16p14NCBI
UBA52
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381918,563,766 - 18,577,550 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1918,571,730 - 18,577,550 (+)EnsemblGRCh38hg38GRCh38
GRCh371918,682,534 - 18,688,360 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361918,543,614 - 18,549,270 (+)NCBINCBI36Build 36hg18NCBI36
Build 341918,543,667 - 18,547,050NCBI
Celera1918,584,823 - 18,590,479 (+)NCBICelera
Cytogenetic Map19p13.11NCBI
HuRef1918,245,210 - 18,250,866 (+)NCBIHuRef
CHM1_11918,682,813 - 18,688,469 (+)NCBICHM1_1
T2T-CHM13v2.01918,706,785 - 18,712,614 (+)NCBIT2T-CHM13v2.0
Uba52
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,960,913 - 70,963,067 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl870,960,913 - 70,963,451 (-)EnsemblGRCm39 Ensembl
GRCm38870,508,263 - 70,510,417 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl43,973,092 - 3,973,595 (-)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl870,508,263 - 70,510,801 (-)EnsemblGRCm38mm10GRCm38
MGSCv37873,032,165 - 73,034,266 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36873,437,255 - 73,439,356 (-)NCBIMGSCv36mm8
Celera873,064,684 - 73,066,785 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map834.15NCBI
Uba52
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555243,006,147 - 3,018,772 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555243,007,074 - 3,009,886 (-)NCBIChiLan1.0ChiLan1.0
UBA52
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11919,018,821 - 19,022,263 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01918,040,946 - 18,052,445 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
UBA52
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12044,477,128 - 44,480,023 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2044,477,130 - 44,479,948 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2044,391,819 - 44,394,638 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02044,963,325 - 44,966,217 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2044,963,327 - 44,966,145 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12044,200,687 - 44,203,507 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02044,610,646 - 44,613,463 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02044,886,089 - 44,888,908 (-)NCBIUU_Cfam_GSD_1.0
Uba52
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118203,157,851 - 203,160,864 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365962,706,994 - 2,719,846 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365962,706,990 - 2,709,957 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBA52
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl259,238,906 - 59,240,274 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1259,238,802 - 59,241,512 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2259,061,299 - 59,064,004 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UBA52
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1617,040,127 - 17,043,569 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl617,040,064 - 17,045,737 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660742,294,542 - 2,298,341 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Uba52
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249081,736,899 - 1,750,516 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249081,745,903 - 1,748,750 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Uba52
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:70
Count of miRNA genes:66
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000027073
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
631517Scl9Serum cholesterol level QTL 93.3blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)161572643321034895Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat

Markers in Region
RH128982  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21618,924,775 - 18,924,931 (+)MAPPERmRatBN7.2
Rnor_6.01620,675,096 - 20,675,251NCBIRnor6.0
Rnor_5.01620,530,575 - 20,530,730UniSTSRnor5.0
RGSC_v3.41619,431,526 - 19,431,681UniSTSRGSC3.4
Celera1619,116,152 - 19,116,307UniSTS
RH 3.4 Map16214.42UniSTS
Cytogenetic Map16p14UniSTS
RH131774  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21618,947,292 - 18,947,489 (+)MAPPERmRatBN7.2
Rnor_6.01620,697,613 - 20,697,809NCBIRnor6.0
Rnor_5.01620,553,092 - 20,553,288UniSTSRnor5.0
RGSC_v3.41619,454,045 - 19,454,241UniSTSRGSC3.4
Celera1619,138,665 - 19,138,861UniSTS
RH 3.4 Map16219.1UniSTS
Cytogenetic Map16p14UniSTS
AA555564  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21927,157,106 - 27,157,155 (+)MAPPERmRatBN7.2
mRatBN7.21618,919,438 - 18,919,486 (+)MAPPERmRatBN7.2
Rnor_6.01620,669,759 - 20,669,806NCBIRnor6.0
Rnor_6.01930,820,088 - 30,820,136NCBIRnor6.0
Rnor_5.01941,725,371 - 41,725,419UniSTSRnor5.0
Rnor_5.01620,525,238 - 20,525,285UniSTSRnor5.0
RGSC_v3.41619,426,189 - 19,426,236UniSTSRGSC3.4
RGSC_v3.41929,006,376 - 29,006,424UniSTSRGSC3.4
Celera1926,674,176 - 26,674,224UniSTS
Celera1619,110,815 - 19,110,862UniSTS
Cytogenetic Map16p14UniSTS
Cytogenetic Map19q11UniSTS


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 3 26 18 18 7 18 41 16 33
Medium 17 39 23 12 23 8 11 33 19 8 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_031687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771146 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC061544 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BP480615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BP492585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210541 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210904 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212205 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212291 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222098 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222507 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222700 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223258 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223423 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223456 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228566 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U25064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U75407 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000027073   ⟹   ENSRNOP00000027073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1620,668,971 - 20,671,127 (+)Ensembl
RefSeq Acc Id: NM_031687   ⟹   NP_113875
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21618,918,651 - 18,920,807 (+)NCBI
Rnor_6.01620,668,971 - 20,671,127 (+)NCBI
Rnor_5.01620,524,450 - 20,526,606 (+)NCBI
RGSC_v3.41619,425,401 - 19,427,557 (+)RGD
Celera1619,110,027 - 19,112,183 (+)RGD
Sequence:
RefSeq Acc Id: XM_006252935   ⟹   XP_006252997
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21618,918,666 - 18,920,807 (+)NCBI
Rnor_6.01620,668,986 - 20,671,127 (+)NCBI
Rnor_5.01620,524,450 - 20,526,606 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771146   ⟹   XP_008769368
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21618,918,614 - 18,920,807 (+)NCBI
Rnor_6.01620,668,925 - 20,671,127 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039094805   ⟹   XP_038950733
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21618,918,651 - 18,920,807 (+)NCBI
RefSeq Acc Id: XM_039094806   ⟹   XP_038950734
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21618,918,667 - 18,920,807 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_113875   ⟸   NM_031687
- UniProtKB: P62986 (UniProtKB/Swiss-Prot),   Q6P7R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252997   ⟸   XM_006252935
- Peptide Label: isoform X2
- UniProtKB: P62986 (UniProtKB/Swiss-Prot),   Q6P7R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769368   ⟸   XM_008771146
- Peptide Label: isoform X2
- UniProtKB: P62986 (UniProtKB/Swiss-Prot),   Q6P7R7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000027073   ⟸   ENSRNOT00000027073
RefSeq Acc Id: XP_038950733   ⟸   XM_039094805
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950734   ⟸   XM_039094806
- Peptide Label: isoform X2
- UniProtKB: Q6P7R7 (UniProtKB/TrEMBL)
Protein Domains
KxDL   Ubiquitin-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P62986-F1-model_v2 AlphaFold P62986 1-128 view protein structure

Transcriptome

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

Promoters
RGD ID:13700028
Promoter ID:EPDNEW_R10551
Type:multiple initiation site
Name:Uba52_1
Description:ubiquitin A-52 residue ribosomal protein fusion product 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_6.01620,668,979 - 20,669,039EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68344 AgrOrtholog
BioCyc Gene G2FUF-11784 BioCyc
Ensembl Genes ENSRNOG00000019971 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00000019974 Ensembl
Ensembl Protein ENSRNOP00000027053.5 UniProtKB/TrEMBL
  ENSRNOP00000027073 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000079541.1 UniProtKB/TrEMBL
  ENSRNOP00000083379.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027053.5 UniProtKB/TrEMBL
  ENSRNOT00000027073 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000097271.1 UniProtKB/TrEMBL
  ENSRNOT00000108401.1 UniProtKB/TrEMBL
Gene3D-CATH 4.10.1060.50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6922034 IMAGE-MGC_LOAD
InterPro KXD1-like UniProtKB/TrEMBL
  L40e_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ribosomal_L40e UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ribosomal_zn-bd UniProtKB/TrEMBL
  Ubiquitin UniProtKB/Swiss-Prot
  Ubiquitin-like_dom UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ubiquitin_dom UniProtKB/Swiss-Prot
  Ubiquitin_dom UniProtKB/TrEMBL
  Uncharacterised_KxDL UniProtKB/TrEMBL
KEGG Report rno:64156 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72766 IMAGE-MGC_LOAD
NCBI Gene 64156 ENTREZGENE
PANTHER PTHR13511 UniProtKB/TrEMBL
Pfam KxDL UniProtKB/TrEMBL
  Ribosomal_L40e UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ubiquitin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Uba52 PhenoGen
PRINTS UBIQUITIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE UBIQUITIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBIQUITIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Ribosomal_L40e UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBQ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54236 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57829 UniProtKB/TrEMBL
TIGR TC216532
UniProt A0A8I5ZZ63_RAT UniProtKB/TrEMBL
  A0A8I6G5G7_RAT UniProtKB/TrEMBL
  A0A8L2QER4_RAT UniProtKB/TrEMBL
  P62986 ENTREZGENE
  Q6P7R7 ENTREZGENE, UniProtKB/TrEMBL
  RL40_RAT UniProtKB/Swiss-Prot
UniProt Secondary P02248 UniProtKB/Swiss-Prot
  P02249 UniProtKB/Swiss-Prot
  P02250 UniProtKB/Swiss-Prot
  P14793 UniProtKB/Swiss-Prot
  P62989 UniProtKB/Swiss-Prot
  Q29120 UniProtKB/Swiss-Prot
  Q63446 UniProtKB/Swiss-Prot
  Q91887 UniProtKB/Swiss-Prot
  Q91888 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Uba52  ubiquitin A-52 residue ribosomal protein fusion product 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction associated with the 60 S ribosomal subunit but not linked to ubiquitin 68210