Usp3 (ubiquitin specific peptidase 3) - Rat Genome Database

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Gene: Usp3 (ubiquitin specific peptidase 3) Rattus norvegicus
Analyze
Symbol: Usp3
Name: ubiquitin specific peptidase 3
RGD ID: 1308852
Description: Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and promoter-specific chromatin binding activity. Involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in Flemming body; cytoplasmic ribonucleoprotein granule; and nucleoplasm. Predicted to be part of chromatin. Predicted to be active in cytoplasm and nucleus. Orthologous to human USP3 (ubiquitin specific peptidase 3); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; histone modification pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC363084; ubiquitin carboxyl-terminal hydrolase 3; ubiquitin specific protease 3; ubiquitin thiolesterase 3
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
GRCr8875,973,278 - 76,049,151 (-)NCBIGRCr8
mRatBN7.2867,078,249 - 67,154,109 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl867,079,927 - 67,154,111 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx872,592,343 - 72,666,625 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0870,865,164 - 70,939,434 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0868,735,501 - 68,809,701 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0872,207,970 - 72,284,871 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl872,207,972 - 72,284,873 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0871,875,687 - 71,951,083 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4870,821,429 - 70,897,119 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1870,840,484 - 70,916,173 (-)NCBI
Celera866,465,505 - 66,539,503 (-)NCBICelera
Cytogenetic Map8q24NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. H2A-DUBbing the mammalian epigenome: expanding frontiers for histone H2A deubiquitinating enzymes in cell biology and physiology. Belle JI and Nijnik A, Int J Biochem Cell Biol. 2014 May;50:161-74. doi: 10.1016/j.biocel.2014.03.004. Epub 2014 Mar 16.
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 MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Push back to respond better: regulatory inhibition of the DNA double-strand break response. Panier S and Durocher D, Nat Rev Mol Cell Biol. 2013 Oct;14(10):661-72. doi: 10.1038/nrm3659. Epub 2013 Sep 4.
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Identification of a short form of ubiquitin-specific protease 3 that is a repressor of rat glutathione S-transferase gene expression. Whalen R, etal., Biochem J. 2006 Mar 1;394(Pt 2):519-26.
Additional References at PubMed
PMID:12477932   PMID:17980597   PMID:25931508  


Genomics

Comparative Map Data
Usp3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8875,973,278 - 76,049,151 (-)NCBIGRCr8
mRatBN7.2867,078,249 - 67,154,109 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl867,079,927 - 67,154,111 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx872,592,343 - 72,666,625 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0870,865,164 - 70,939,434 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0868,735,501 - 68,809,701 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0872,207,970 - 72,284,871 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl872,207,972 - 72,284,873 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0871,875,687 - 71,951,083 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4870,821,429 - 70,897,119 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1870,840,484 - 70,916,173 (-)NCBI
Celera866,465,505 - 66,539,503 (-)NCBICelera
Cytogenetic Map8q24NCBI
USP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381563,504,593 - 63,594,633 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1563,504,511 - 63,594,640 (+)EnsemblGRCh38hg38GRCh38
GRCh371563,796,792 - 63,886,832 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361561,583,863 - 61,670,716 (+)NCBINCBI36Build 36hg18NCBI36
Build 341561,583,862 - 61,670,714NCBI
Celera1540,676,343 - 40,763,066 (+)NCBICelera
Cytogenetic Map15q22.31NCBI
HuRef1540,621,287 - 40,711,268 (+)NCBIHuRef
CHM1_11563,915,941 - 64,006,065 (+)NCBICHM1_1
T2T-CHM13v2.01561,311,846 - 61,401,872 (+)NCBIT2T-CHM13v2.0
Usp3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39966,421,573 - 66,501,996 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl966,421,919 - 66,500,424 (-)EnsemblGRCm39 Ensembl
GRCm38966,514,639 - 66,593,148 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl966,514,637 - 66,593,142 (-)EnsemblGRCm38mm10GRCm38
MGSCv37966,365,688 - 66,440,787 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36966,315,887 - 66,390,986 (-)NCBIMGSCv36mm8
Celera963,751,848 - 63,826,987 (-)NCBICelera
Cytogenetic Map9CNCBI
cM Map935.96NCBI
Usp3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545011,727,104 - 11,802,462 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545011,729,433 - 11,802,462 (-)NCBIChiLan1.0ChiLan1.0
USP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21652,752,572 - 52,839,422 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11556,928,338 - 57,018,712 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01542,450,782 - 42,541,162 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11560,769,071 - 60,834,312 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1560,746,406 - 60,830,535 (+)Ensemblpanpan1.1panPan2
USP3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13028,073,484 - 28,184,121 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3028,072,655 - 28,181,749 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3027,994,320 - 28,105,523 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03028,247,380 - 28,358,779 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3028,247,372 - 28,356,897 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13028,184,910 - 28,296,144 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03028,247,406 - 28,358,439 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03028,485,422 - 28,596,600 (+)NCBIUU_Cfam_GSD_1.0
Usp3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640106,190,114 - 106,282,480 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647124,035,655 - 24,130,997 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647124,032,644 - 24,130,543 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USP3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1108,415,703 - 108,515,447 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11108,414,358 - 108,515,611 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
USP3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12619,947,806 - 20,030,515 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2619,948,453 - 19,992,638 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048121,366,857 - 121,451,299 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Usp3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247818,918,526 - 9,016,070 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247818,918,532 - 9,016,022 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Usp3
229 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:76
Count of miRNA genes:68
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000057739
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82266233067662330Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82613018771130187Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)82613018771130187Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)82824291273242912Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)82950266570386295Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83084815482460899Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83084815482460899Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83084815482460899Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83084815482460899Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83555193880551938Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84071306682925667Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84186687675097878Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)84186701070386132Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)84653172299083736Rat
2303570Gluco48Glucose level QTL 482blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)84980583194805831Rat
2313086Bss60Bone structure and strength QTL 604.10.0001tibia length (VT:0004357)tibia length (CMO:0000450)85009524982460899Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85009524982460899Rat
5684973Bss100Bone structure and strength QTL 1004.7tibia area (VT:1000281)tibia area measurement (CMO:0001382)85009524982460899Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)85404374498968765Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)85423764485365202Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)85423764485365202Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)85423764499103503Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)854259986100382532Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat

Markers in Region
BE097110  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,091,786 - 67,091,949 (+)MAPPERmRatBN7.2
Rnor_6.0872,219,833 - 72,219,995NCBIRnor6.0
Rnor_5.0871,888,380 - 71,888,542UniSTSRnor5.0
RGSC_v3.4870,834,122 - 70,834,284UniSTSRGSC3.4
Celera866,477,355 - 66,477,517UniSTS
RH 3.4 Map8849.5UniSTS
Cytogenetic Map8q24UniSTS
AA925744  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,079,960 - 67,080,074 (+)MAPPERmRatBN7.2
Rnor_6.0872,208,006 - 72,208,119NCBIRnor6.0
Rnor_5.0871,875,723 - 71,875,836UniSTSRnor5.0
RGSC_v3.4870,821,465 - 70,821,578UniSTSRGSC3.4
Celera866,465,541 - 66,465,654UniSTS
RH 3.4 Map8849.8UniSTS
Cytogenetic Map8q24UniSTS
RH138449  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,099,323 - 67,099,458 (+)MAPPERmRatBN7.2
Rnor_6.0872,227,370 - 72,227,504NCBIRnor6.0
Rnor_5.0871,896,037 - 71,896,171UniSTSRnor5.0
RGSC_v3.4870,841,789 - 70,841,923UniSTSRGSC3.4
Celera866,484,943 - 66,485,077UniSTS
RH 3.4 Map8845.9UniSTS
Cytogenetic Map8q24UniSTS


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 28 56 41 19 41 66 35 39 11
Low 15 1 8 11 8 2 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000057739   ⟹   ENSRNOP00000054551
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,079,927 - 67,154,111 (-)Ensembl
Rnor_6.0 Ensembl872,207,972 - 72,284,873 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000080319   ⟹   ENSRNOP00000073732
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,079,927 - 67,154,090 (-)Ensembl
Rnor_6.0 Ensembl872,207,972 - 72,284,852 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094873   ⟹   ENSRNOP00000084539
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,079,927 - 67,154,111 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100745   ⟹   ENSRNOP00000086159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,079,927 - 67,137,755 (-)Ensembl
RefSeq Acc Id: NM_001025424   ⟹   NP_001020595
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8875,974,954 - 76,049,151 (-)NCBI
mRatBN7.2867,079,925 - 67,154,109 (-)NCBI
Rnor_6.0872,207,970 - 72,284,871 (-)NCBI
Rnor_5.0871,875,687 - 71,951,083 (-)NCBI
RGSC_v3.4870,821,429 - 70,897,119 (-)RGD
Celera866,465,505 - 66,539,503 (-)RGD
Sequence:
RefSeq Acc Id: XM_039081750   ⟹   XP_038937678
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8875,973,278 - 76,034,667 (-)NCBI
mRatBN7.2867,078,249 - 67,134,112 (-)NCBI
RefSeq Acc Id: XM_039081751   ⟹   XP_038937679
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8875,973,278 - 76,048,951 (-)NCBI
mRatBN7.2867,078,249 - 67,153,903 (-)NCBI
RefSeq Acc Id: XM_063265769   ⟹   XP_063121839
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8875,973,278 - 76,048,238 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001020595   ⟸   NM_001025424
- UniProtKB: Q4JL29 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073732   ⟸   ENSRNOT00000080319
RefSeq Acc Id: ENSRNOP00000054551   ⟸   ENSRNOT00000057739
RefSeq Acc Id: XP_038937679   ⟸   XM_039081751
- Peptide Label: isoform X2
- UniProtKB: Q4JL29 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937678   ⟸   XM_039081750
- Peptide Label: isoform X1
- UniProtKB: A0A8I6A351 (UniProtKB/TrEMBL),   Q4JL29 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000086159   ⟸   ENSRNOT00000100745
RefSeq Acc Id: ENSRNOP00000084539   ⟸   ENSRNOT00000094873
RefSeq Acc Id: XP_063121839   ⟸   XM_063265769
- Peptide Label: isoform X1
Protein Domains
UBP-type   USP

Transcriptome

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

Promoters
RGD ID:13696089
Promoter ID:EPDNEW_R6613
Type:multiple initiation site
Name:Usp3_1
Description:ubiquitin specific peptidase 3
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_6.0872,284,898 - 72,284,958EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308852 AgrOrtholog
BioCyc Gene G2FUF-30018 BioCyc
Ensembl Genes ENSRNOG00000017714 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057739.5 UniProtKB/TrEMBL
  ENSRNOT00000080319.2 UniProtKB/TrEMBL
  ENSRNOT00000094873 ENTREZGENE
  ENSRNOT00000094873.1 UniProtKB/TrEMBL
  ENSRNOT00000100745.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  Cysteine proteinases UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7383067 IMAGE-MGC_LOAD
InterPro Papain_like_cys_pep_sf UniProtKB/TrEMBL
  Pept_C19ubi-hydrolase_C_CS UniProtKB/TrEMBL
  Peptidase_C19 UniProtKB/TrEMBL
  UCH/PAN2 UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_UBP UniProtKB/TrEMBL
KEGG Report rno:363084 UniProtKB/TrEMBL
MGC_CLONE MGC:156515 IMAGE-MGC_LOAD
NCBI Gene 363084 ENTREZGENE
PANTHER UBIQUITIN CARBOXYL-TERMINAL HYDROLASE UniProtKB/TrEMBL
  UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 3 UniProtKB/TrEMBL
Pfam UCH UniProtKB/TrEMBL
  zf-UBP UniProtKB/TrEMBL
PhenoGen Usp3 PhenoGen
PROSITE UCH_2_1 UniProtKB/TrEMBL
  UCH_2_2 UniProtKB/TrEMBL
  UCH_2_3 UniProtKB/TrEMBL
  ZF_UBP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017714 RatGTEx
SMART ZnF_UBP UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SSF54001 UniProtKB/TrEMBL
UniProt A0A8I6A0C2_RAT UniProtKB/TrEMBL
  A0A8I6A351 ENTREZGENE, UniProtKB/TrEMBL
  A1L1I5_RAT UniProtKB/TrEMBL
  D4A4F6_RAT UniProtKB/TrEMBL
  Q4JL29 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A0G2K699 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Usp3  ubiquitin specific peptidase 3    ubiquitin specific protease 3  Name updated 1299863 APPROVED
2005-12-06 Usp3  ubiquitin specific protease 3  Usp3_predicted  ubiquitin specific protease 3 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Usp3_predicted  ubiquitin specific protease 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED