Usp47 (ubiquitin specific peptidase 47) - Rat Genome Database

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Gene: Usp47 (ubiquitin specific peptidase 47) Ictidomys tridecemlineatus
Analyze
Symbol: Usp47
Name: ubiquitin specific peptidase 47
RGD ID: 12733416
Description: ENCODES a protein that exhibits cysteine-type deubiquitinase activity (inferred); cysteine-type peptidase activity (inferred); deubiquitinase activity (inferred); INVOLVED IN intrinsic apoptotic signaling pathway in response to DNA damage (ortholog); negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage (ortholog); ASSOCIATED WITH intellectual disability (ortholog); FOUND IN nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ubiquitin carboxyl-terminal hydrolase 47; ubiquitin specific peptidase 47, transcript variant X1; ubiquitin specific peptidase 47, transcript variant X2; ubiquitin specific peptidase 47, transcript variant X3; ubiquitin specific peptidase 47, transcript variant X4; ubiquitin specific peptidase 47, transcript variant X5; ubiquitin specific peptidase 47, transcript variant X6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494750,450,282 - 50,561,650 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365286,481,507 - 6,595,771 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365286,483,898 - 6,596,136 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Usp47
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494750,450,282 - 50,561,650 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365286,481,507 - 6,595,771 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365286,483,898 - 6,596,136 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USP47
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381111,841,972 - 11,961,887 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1111,841,423 - 11,961,887 (+)EnsemblGRCh38hg38GRCh38
GRCh371111,863,519 - 11,983,434 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361111,819,546 - 11,937,448 (+)NCBINCBI36Build 36hg18NCBI36
Build 341111,820,140 - 11,934,691NCBI
Celera1111,987,161 - 12,106,131 (+)NCBICelera
Cytogenetic Map11p15.3NCBI
HuRef1111,538,966 - 11,656,900 (+)NCBIHuRef
CHM1_11111,862,028 - 11,979,798 (+)NCBICHM1_1
T2T-CHM13v2.01111,931,131 - 12,053,770 (+)NCBIT2T-CHM13v2.0
Usp47
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397111,622,692 - 111,710,591 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7111,622,711 - 111,710,868 (+)EnsemblGRCm39 Ensembl
GRCm387112,023,476 - 112,111,386 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7112,023,504 - 112,111,661 (+)EnsemblGRCm38mm10GRCm38
MGSCv377119,167,020 - 119,254,894 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367111,814,687 - 111,902,561 (+)NCBIMGSCv36mm8
Celera7111,998,866 - 112,086,718 (+)NCBICelera
Cytogenetic Map7F1NCBI
cM Map758.74NCBI
Usp47
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81175,586,758 - 175,669,904 (+)NCBIGRCr8
mRatBN7.21166,152,104 - 166,235,312 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1166,152,199 - 166,235,312 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1174,487,162 - 174,570,366 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01181,673,157 - 181,756,359 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01174,373,161 - 174,456,333 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01176,854,589 - 176,937,763 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1176,854,653 - 176,937,763 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01183,833,960 - 183,917,156 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41169,836,253 - 169,920,055 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11169,947,098 - 170,039,002 (+)NCBI
Celera1164,029,805 - 164,112,586 (+)NCBICelera
Cytogenetic Map1q33NCBI
Usp47
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541427,357,602 - 27,462,731 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541427,357,602 - 27,462,481 (+)NCBIChiLan1.0ChiLan1.0
USP47
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2914,288,095 - 14,405,971 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11114,250,741 - 14,368,585 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01112,009,770 - 12,127,425 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11111,703,617 - 11,821,074 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1111,703,617 - 11,821,074 (+)Ensemblpanpan1.1panPan2
USP47
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12134,917,664 - 35,027,969 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2134,911,269 - 35,026,790 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2134,474,475 - 34,592,291 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02135,785,967 - 35,904,085 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2135,785,915 - 35,903,530 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12135,047,648 - 35,165,601 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02135,225,495 - 35,343,446 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02135,512,018 - 35,629,856 (+)NCBIUU_Cfam_GSD_1.0
USP47
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl247,449,161 - 47,582,819 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1247,449,162 - 47,583,893 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2250,764,919 - 50,825,320 (-)NCBISscrofa10.2Sscrofa10.2susScr3
USP47
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1152,872,514 - 52,989,111 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl152,875,465 - 52,988,505 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038150,473,946 - 150,593,952 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Usp47
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247663,913,066 - 4,035,623 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247663,913,033 - 4,038,275 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000004081   ⟹   ENSSTOP00000003661
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365286,483,341 - 6,595,771 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000036210   ⟹   ENSSTOP00000026344
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365286,481,507 - 6,595,422 (-)Ensembl
RefSeq Acc Id: XM_005326794   ⟹   XP_005326851
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494750,450,367 - 50,561,650 (-)NCBI
SpeTri2.0NW_0049365286,483,898 - 6,596,136 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021727360   ⟹   XP_021583035
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494750,450,282 - 50,522,044 (-)NCBI
SpeTri2.0NW_0049365286,483,898 - 6,556,342 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040284737   ⟹   XP_040140671
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494750,450,282 - 50,531,448 (-)NCBI
RefSeq Acc Id: XM_040284738   ⟹   XP_040140672
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494750,450,282 - 50,531,448 (-)NCBI
RefSeq Acc Id: XM_040284739   ⟹   XP_040140673
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494750,450,282 - 50,531,451 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_005326851   ⟸   XM_005326794
- Peptide Label: isoform X3
- UniProtKB: A0A287CYL2 (UniProtKB/TrEMBL),   I3M3K3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021583035   ⟸   XM_021727360
- Peptide Label: isoform X5
- UniProtKB: I3M3K3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040140673   ⟸   XM_040284739
- Peptide Label: isoform X4
- UniProtKB: I3M3K3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040140672   ⟸   XM_040284738
- Peptide Label: isoform X2
- UniProtKB: I3M3K3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040140671   ⟸   XM_040284737
- Peptide Label: isoform X1
- UniProtKB: I3M3K3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSSTOP00000003661   ⟸   ENSSTOT00000004081
RefSeq Acc Id: ENSSTOP00000026344   ⟸   ENSSTOT00000036210
Protein Domains
USP


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000004061 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000004081.3 UniProtKB/TrEMBL
  ENSSTOT00000036210.1 UniProtKB/TrEMBL
Gene3D-CATH Cysteine proteinases UniProtKB/TrEMBL
InterPro Papain-like_cys_pep_sf UniProtKB/TrEMBL
  Peptidase_C19_UCH UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/TrEMBL
  USP47_C UniProtKB/TrEMBL
  USP_CS UniProtKB/TrEMBL
  USP_dom UniProtKB/TrEMBL
NCBI Gene Usp47 ENTREZGENE
PANTHER UBIQUITIN CARBOXYL-TERMINAL HYDROLASE UniProtKB/TrEMBL
  UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 47 UniProtKB/TrEMBL
Pfam UCH UniProtKB/TrEMBL
  USP47_C UniProtKB/TrEMBL
PROSITE USP_1 UniProtKB/TrEMBL
  USP_2 UniProtKB/TrEMBL
  USP_3 UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/TrEMBL
  SSF54236 UniProtKB/TrEMBL
UniProt A0A287CYL2 ENTREZGENE, UniProtKB/TrEMBL
  I3M3K3 ENTREZGENE, UniProtKB/TrEMBL