YOD1 (YOD1 deubiquitinase) - Rat Genome Database

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Gene: YOD1 (YOD1 deubiquitinase) Canis lupus familiaris
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Symbol: YOD1
Name: YOD1 deubiquitinase
RGD ID: 12247146
Description: ENCODES a protein that exhibits Lys48-specific deubiquitinase activity (inferred); metal ion binding (inferred); ubiquitin protein ligase binding (inferred); INVOLVED IN macroautophagy (inferred); negative regulation of retrograde protein transport, ER to cytosol (inferred); protein K11-linked deubiquitination (inferred); ASSOCIATED WITH autistic disorder (ortholog); gastrointestinal stromal tumor (ortholog); parathyroid carcinoma (ortholog); FOUND IN cytoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOW QUALITY PROTEIN: ubiquitin thioesterase OTU1; ubiquitin thioesterase OTU1; YOD1 OTU deubiquinating enzyme 1 homolog
RGD Orthologs
Human
Mouse
Rat
Bonobo
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.176,185,650 - 6,194,005 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl76,190,752 - 6,193,284 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha75,749,059 - 5,757,297 (-)NCBI
ROS_Cfam_1.075,874,444 - 5,882,763 (-)NCBI
UMICH_Zoey_3.175,808,168 - 5,816,424 (-)NCBI
UNSW_CanFamBas_1.075,909,780 - 5,918,003 (-)NCBI
UU_Cfam_GSD_1.075,949,935 - 5,958,184 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Genomics

Comparative Map Data
YOD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.176,185,650 - 6,194,005 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl76,190,752 - 6,193,284 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha75,749,059 - 5,757,297 (-)NCBI
ROS_Cfam_1.075,874,444 - 5,882,763 (-)NCBI
UMICH_Zoey_3.175,808,168 - 5,816,424 (-)NCBI
UNSW_CanFamBas_1.075,909,780 - 5,918,003 (-)NCBI
UU_Cfam_GSD_1.075,949,935 - 5,958,184 (-)NCBI
YOD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1207,043,849 - 207,052,980 (-)EnsemblGRCh38hg38GRCh38
GRCh381207,043,849 - 207,053,116 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371207,217,194 - 207,226,461 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361205,283,817 - 205,291,045 (-)NCBINCBI36hg18NCBI36
Celera1180,468,698 - 180,475,926 (-)NCBI
Cytogenetic Map1q32.1NCBI
HuRef1177,914,550 - 177,923,681 (-)NCBIHuRef
CHM1_11208,489,805 - 208,498,936 (-)NCBICHM1_1
Yod1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391130,645,064 - 130,649,810 (+)NCBIGRCm39mm39
GRCm39 Ensembl1130,645,064 - 130,652,095 (+)Ensembl
GRCm381130,717,327 - 130,722,073 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1130,717,327 - 130,724,358 (+)EnsemblGRCm38mm10GRCm38
MGSCv371132,613,904 - 132,618,650 (+)NCBIGRCm37mm9NCBIm37
MGSCv361132,544,873 - 132,549,566 (+)NCBImm8
Celera1133,340,721 - 133,345,469 (+)NCBICelera
Cytogenetic Map1E4NCBI
Yod1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21342,175,313 - 42,177,030 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1342,174,820 - 42,177,205 (+)Ensembl
Rnor_6.01347,441,296 - 47,443,013 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1347,440,803 - 47,443,188 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01352,529,960 - 52,531,677 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41343,653,274 - 43,654,991 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11343,667,316 - 43,669,034 (+)NCBI
Celera1342,526,067 - 42,527,784 (+)NCBICelera
Cytogenetic Map13q13NCBI
YOD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11186,925,034 - 186,932,545 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1186,930,209 - 186,932,225 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01182,646,727 - 182,655,141 (-)NCBIMhudiblu_PPA_v0panPan3
YOD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl967,672,648 - 67,681,843 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1967,672,640 - 67,681,889 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2974,057,174 - 74,061,141 (-)NCBISscrofa10.2Sscrofa10.2susScr3
YOD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12522,307,703 - 22,311,919 (+)NCBI
ChlSab1.1 Ensembl2522,307,778 - 22,309,716 (+)Ensembl
Vero_WHO_p1.0NW_02366605522,949,362 - 22,954,186 (+)NCBI
Yod1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248074,443,653 - 4,448,759 (+)NCBI


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 reproductive system respiratory system adipose tissue
High
Medium 6 6 2 8 2
Low 5 5 16 6 6 6 6 10 8 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000018294   ⟹   ENSCAFP00000016941
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl76,190,752 - 6,193,284 (-)Ensembl
RefSeq Acc Id: XM_005622310   ⟹   XP_005622367
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.176,185,650 - 6,194,005 (-)NCBI
Dog10K_Boxer_Tasha75,749,059 - 5,757,297 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038480685   ⟹   XP_038336613
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.175,808,168 - 5,816,424 (-)NCBI
RefSeq Acc Id: XM_038542007   ⟹   XP_038397935
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.075,949,935 - 5,958,139 (-)NCBI
RefSeq Acc Id: XM_038542008   ⟹   XP_038397936
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.075,949,935 - 5,958,184 (-)NCBI
RefSeq Acc Id: XM_038606146   ⟹   XP_038462074
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.075,909,780 - 5,917,959 (-)NCBI
RefSeq Acc Id: XM_038606147   ⟹   XP_038462075
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.075,909,780 - 5,918,003 (-)NCBI
RefSeq Acc Id: XM_038670843   ⟹   XP_038526771
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.075,874,444 - 5,882,719 (-)NCBI
RefSeq Acc Id: XM_038670844   ⟹   XP_038526772
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.075,874,444 - 5,882,763 (-)NCBI
RefSeq Acc Id: XM_547387   ⟹   XP_547387
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.176,185,650 - 6,193,965 (-)NCBI
Dog10K_Boxer_Tasha75,749,059 - 5,757,253 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_005622367   ⟸   XM_005622310
- Peptide Label: isoform X2
- UniProtKB: J9P3T6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_547387   ⟸   XM_547387
- Peptide Label: isoform X1
- UniProtKB: E2R1N1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000016941   ⟸   ENSCAFT00000018294
RefSeq Acc Id: XP_038336613   ⟸   XM_038480685
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038462075   ⟸   XM_038606147
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038462074   ⟸   XM_038606146
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038526772   ⟸   XM_038670844
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038526771   ⟸   XM_038670843
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038397936   ⟸   XM_038542008
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038397935   ⟸   XM_038542007
- Peptide Label: isoform X1

Promoters
RGD ID:13683889
Promoter ID:EPDNEW_C1955
Type:multiple initiation site
Name:YOD1_1
Description:YOD1 deubiquitinase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.176,193,263 - 6,193,323EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000011526 Ensembl, ENTREZGENE
Ensembl Protein ENSCAFP00000016941 ENTREZGENE
NCBI Gene YOD1 ENTREZGENE
UniProt E2R1N1 ENTREZGENE
  J9P3T6 ENTREZGENE
VGNC ID VGNC:48496 ENTREZGENE