Usp25 (ubiquitin specific peptidase 25) - Rat Genome Database

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Gene: Usp25 (ubiquitin specific peptidase 25) Rattus norvegicus
Analyze
Symbol: Usp25
Name: ubiquitin specific peptidase 25
RGD ID: 1309003
Description: Predicted to have SUMO binding activity; enzyme binding activity; and peptidase activity. Predicted to be involved in negative regulation of ERAD pathway; protein K48-linked deubiquitination; and protein K63-linked deubiquitination. Predicted to localize to cytosol; endoplasmic reticulum; and nucleus. Orthologous to human USP25 (ubiquitin specific peptidase 25); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC108348050; LOC304150; ubiquitin carboxyl-terminal hydrolase 25; ubiquitin carboxyl-terminal hydrolase 25-like; ubiquitin specific protease 25
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21115,603,654 - 15,711,356 (+)NCBI
Rnor_6.0 Ensembl1115,081,774 - 15,089,850 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1115,436,269 - 15,558,646 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01115,436,080 - 15,558,646 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01119,095,215 - 19,215,613 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01118,721,858 - 18,745,175 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41115,799,829 - 15,907,792 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11115,799,997 - 15,906,598 (+)NCBI
Celera1115,609,163 - 15,716,459 (+)NCBICelera
Cytogenetic Map11p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IBA,ISO)
endoplasmic reticulum  (ISO)
nucleus  (IBA)

Molecular Function

References

Additional References at PubMed
PMID:18538659   PMID:22590560   PMID:22871113  


Genomics

Comparative Map Data
Usp25
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21115,603,654 - 15,711,356 (+)NCBI
Rnor_6.0 Ensembl1115,081,774 - 15,089,850 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1115,436,269 - 15,558,646 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01115,436,080 - 15,558,646 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01119,095,215 - 19,215,613 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01118,721,858 - 18,745,175 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41115,799,829 - 15,907,792 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11115,799,997 - 15,906,598 (+)NCBI
Celera1115,609,163 - 15,716,459 (+)NCBICelera
Cytogenetic Map11p11NCBI
USP25
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2115,730,025 - 15,880,069 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl2115,729,982 - 15,880,064 (+)EnsemblGRCh38hg38GRCh38
GRCh382115,729,947 - 15,880,064 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372117,102,301 - 17,252,383 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362116,024,367 - 16,174,248 (+)NCBINCBI36hg18NCBI36
Build 342116,024,366 - 16,174,248NCBI
Celera212,272,740 - 2,422,618 (+)NCBI
Cytogenetic Map21q21.1NCBI
HuRef212,481,855 - 2,631,589 (+)NCBIHuRef
CHM1_12116,662,850 - 16,813,004 (+)NCBICHM1_1
Usp25
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391676,810,573 - 76,913,671 (+)NCBIGRCm39mm39
GRCm39 Ensembl1676,810,594 - 76,913,668 (+)Ensembl
GRCm381677,013,684 - 77,116,783 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1677,013,706 - 77,116,780 (+)EnsemblGRCm38mm10GRCm38
MGSCv371677,014,314 - 77,117,025 (+)NCBIGRCm37mm9NCBIm37
MGSCv361676,896,661 - 76,999,372 (+)NCBImm8
Celera1677,241,870 - 77,344,813 (+)NCBICelera
Cytogenetic Map16C3.1NCBI
Usp25
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540717,429,299 - 17,575,262 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540717,429,299 - 17,572,138 (+)NCBIChiLan1.0ChiLan1.0
USP25
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12115,834,158 - 15,982,182 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2115,724,729 - 15,982,182 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0212,468,993 - 2,618,200 (+)NCBIMhudiblu_PPA_v0panPan3
USP25
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13112,555,614 - 12,692,765 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3112,555,595 - 12,691,694 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3112,567,579 - 12,704,519 (+)NCBI
ROS_Cfam_1.03112,582,490 - 12,719,684 (+)NCBI
UMICH_Zoey_3.13112,553,996 - 12,690,361 (+)NCBI
UNSW_CanFamBas_1.03112,592,012 - 12,728,277 (+)NCBI
UU_Cfam_GSD_1.03112,989,867 - 13,126,766 (+)NCBI
Usp25
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497113,693,817 - 13,762,699 (+)NCBI
SpeTri2.0NW_0049365058,613,588 - 8,683,560 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USP25
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13180,570,969 - 180,714,075 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113180,571,019 - 180,708,966 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213190,890,832 - 191,008,377 (+)NCBISscrofa10.2Sscrofa10.2susScr3
USP25
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1276,660,926 - 76,805,153 (-)NCBI
ChlSab1.1 Ensembl276,662,159 - 76,791,688 (-)Ensembl
Usp25
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247454,170,328 - 4,306,604 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11133867429Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11172720192Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)1132503169342559Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11935127454351274Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111136730644444347Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:526
Count of miRNA genes:267
Interacting mature miRNAs:312
Transcripts:ENSRNOT00000002150
Prediction methods:Microtar, Miranda
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 42 43 27 19 27 8 10 74 35 41 11 8
Low 1 14 14 14 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002150   ⟹   ENSRNOP00000002150
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1115,436,269 - 15,558,638 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000009911   ⟹   ENSRNOP00000009911
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1115,081,774 - 15,089,850 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084928   ⟹   ENSRNOP00000071094
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1115,436,382 - 15,558,646 (+)Ensembl
RefSeq Acc Id: NM_001107114   ⟹   NP_001100584
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21115,603,881 - 15,711,348 (+)NCBI
Rnor_6.01115,436,269 - 15,558,638 (+)NCBI
Rnor_5.01119,095,215 - 19,215,613 (+)NCBI
RGSC_v3.41115,799,829 - 15,907,792 (+)RGD
Celera1115,609,163 - 15,716,459 (+)RGD
Sequence:
RefSeq Acc Id: XM_006247998   ⟹   XP_006248060
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01115,485,593 - 15,558,646 (+)NCBI
Rnor_5.01119,095,215 - 19,215,613 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006247999   ⟹   XP_006248061
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01115,436,080 - 15,558,646 (+)NCBI
Rnor_5.01119,095,215 - 19,215,613 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039088444   ⟹   XP_038944372
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21115,603,656 - 15,711,356 (+)NCBI
RefSeq Acc Id: XM_039088445   ⟹   XP_038944373
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21115,603,654 - 15,708,351 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100584 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944372 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944373 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10593 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100584   ⟸   NM_001107114
- UniProtKB: D4ACD3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248061   ⟸   XM_006247999
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006248060   ⟸   XM_006247998
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000071094   ⟸   ENSRNOT00000084928
RefSeq Acc Id: ENSRNOP00000002150   ⟸   ENSRNOT00000002150
RefSeq Acc Id: XP_038944373   ⟸   XM_039088445
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944372   ⟸   XM_039088444
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000009911   ⟸   ENSRNOT00000009911
Protein Domains
USP

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309003 AgrOrtholog
Ensembl Genes ENSRNOG00000001573 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000050713 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002150 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000009911 UniProtKB/TrEMBL
  ENSRNOP00000071094 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002150 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000009911 UniProtKB/TrEMBL
  ENSRNOT00000084928 UniProtKB/TrEMBL
InterPro Papain_like_cys_pep_sf UniProtKB/TrEMBL
  Pept_C19ubi-hydrolase_C_CS UniProtKB/TrEMBL
  Peptidase_C19 UniProtKB/TrEMBL
  UBA-like UniProtKB/TrEMBL
  Ubiquitin-int_motif UniProtKB/TrEMBL
  UCH/PAN2 UniProtKB/TrEMBL
KEGG Report rno:304150 UniProtKB/TrEMBL
NCBI Gene 304150 ENTREZGENE
Pfam UCH UniProtKB/TrEMBL
  UIM UniProtKB/TrEMBL
PhenoGen Usp25 PhenoGen
PROSITE UCH_2_1 UniProtKB/TrEMBL
  UCH_2_2 UniProtKB/TrEMBL
  UCH_2_3 UniProtKB/TrEMBL
  UIM UniProtKB/TrEMBL
SMART UIM UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/TrEMBL
  UBA_like UniProtKB/TrEMBL
UniProt D3ZWN5_RAT UniProtKB/TrEMBL
  D4ACD3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Usp25  ubiquitin specific peptidase 25  LOC108348050  ubiquitin carboxyl-terminal hydrolase 25-like  Data Merged 737654 PROVISIONAL
2016-08-02 LOC108348050  ubiquitin carboxyl-terminal hydrolase 25-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-04 Usp25  ubiquitin specific peptidase 25  Usp25_predicted  ubiquitin specific protease 25 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Usp25_predicted  ubiquitin specific protease 25 (predicted)      Symbol and Name status set to approved 70820 APPROVED