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Protein ubiquitination controls many intracellular processes, including cell cycle progression, transcriptional activation, and signal transduction. This dynamic process, involving ubiquitin conjugating enzymes and deubiquitinating enzymes, adds and removes ubiquitin. Deubiquitinating enzymes are cysteine proteases that specifically cleave ubiquitin from ubiquitin-conjugated pr... See more...
Aliases for YOD1 Gene
Aliases for YOD1 Gene
External Ids for YOD1 Gene
- HGNC: 25035
- Entrez Gene: 55432
- Ensembl: ENSG00000180667
- OMIM: 612023
- UniProtKB: Q5VVQ6
Previous GeneCards Identifiers for YOD1 Gene
- GC01M203608
- GC01M205284
- GC01M207217
- GC01M177914
Summaries for YOD1 Gene
-
Protein ubiquitination controls many intracellular processes, including cell cycle progression, transcriptional activation, and signal transduction. This dynamic process, involving ubiquitin conjugating enzymes and deubiquitinating enzymes, adds and removes ubiquitin. Deubiquitinating enzymes are cysteine proteases that specifically cleave ubiquitin from ubiquitin-conjugated protein substrates. The protein encoded by this gene belongs to a DUB subfamily characterized by an ovarian tumor (OTU) domain. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2013]
GeneCards Summary for YOD1 Gene
YOD1 (YOD1 Deubiquitinase) is a Protein Coding gene. Diseases associated with YOD1 include Brown-Sequard Syndrome. Among its related pathways are Ovarian tumor domain proteases and Metabolism of proteins. Gene Ontology (GO) annotations related to this gene include thiol-dependent ubiquitin-specific protease activity and Lys48-specific deubiquitinase activity.
UniProtKB/Swiss-Prot Summary for YOD1 Gene
-
Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin chains. Also able to hydrolyze 'Lys-11'-linked ubiquitin chains. Cleaves both polyubiquitin and di-ubiquitin. May play a role in macroautophagy, regulating for instance the clearance of damaged lysosomes. May recruit PLAA, UBXN6 and VCP to damaged lysosome membranes decorated with K48-linked ubiquitin chains and remove these chains allowing autophagosome formation (PubMed:27753622).
Additional gene information for YOD1 Gene
- HGNC(25035)
- Entrez Gene(55432)
- Ensembl(ENSG00000180667)
- OMIM(612023)
- UniProtKB(Q5VVQ6)
- Open Targets Platform(ENSG00000180667)
- Search for YOD1 at DataMed
- Search for YOD1 at HumanCyc
No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for YOD1 Gene
Genomics for YOD1 Gene
GeneHancer (GH) Regulatory Elements Pubs
Promoters and enhancers for YOD1 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association
Download GeneHancer data from 2017 publication |
Request up-to-date GeneHancer data (full dataset)
GeneHancers around YOD1 on the GeneHancer Hub at the UCSC Golden Path
Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for YOD1
- Top Transcription factor binding sites by QIAGEN in the YOD1 gene promoter:
-
- E2F
- E2F-1
- E2F-2
- E2F-3a
- E2F-4
- E2F-5
- GATA-1
- GATA-2
- HSF2
- HTF
Genomic Locations for YOD1 Gene
Genomic Locations for YOD1 Gene
- chr1:207,043,849-207,052,980
- (GRCh38/hg38)
- Size:
- 9,132 bases
- Orientation:
- Minus strand
- chr1:207,217,194-207,226,325
- (GRCh37/hg19)
- Size:
- 9,132 bases
- Orientation:
- Minus strand
Genomic View for YOD1 Gene
Genes around YOD1 on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 1q32.1 by HGNC
- 1q32.1 by Entrez Gene
- 1q32.1 by Ensembl
YOD1 Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for YOD1 Gene
Proteins for YOD1 Gene
-
Protein details for YOD1 Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- Q5VVQ6-OTU1_HUMAN
- Recommended name:
- Ubiquitin thioesterase OTU1
- Protein Accession:
- Q5VVQ6
- B2RNX3
- Q5VVQ5
- Q6ZRS6
- Q86T63
- Q9P1L8
Protein attributes for YOD1 Gene
- Size:
- 348 amino acids
- Molecular mass:
- 38322 Da
- Quaternary structure:
-
- Interacts with VCP; the interaction is direct. Interacts with FAF2/UBXD8. Interacts with DERL1; however interaction is dependent on the UBAX-like region, suggesting that it may be indirect. Interacts with PLAA, UBXN6 and VCP; may form a complex involved in macroautophagy (PubMed:27753622).
- SequenceCaution:
-
- Sequence=AAF71033.1; Type=Erroneous translation; Note=Wrong choice of frame.; Evidence={ECO:0000305}; Sequence=EAW93510.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
Protein Expression for YOD1 Gene
Selected DME Specific Peptides for YOD1 Gene
- Q5VVQ6:
-
- DGIHYDPL
- DDIVLVQALELADEAR
- SILSKFYQCEICVVDTQTVR
- CQKGLTGQ
- LRCMVCQ
- FPDPDTPPLTIFSS
- YYVVEGGV
Post-translational modifications for YOD1 Gene
Other Protein References for YOD1 Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
- G Biosciences Immunotag™ YOD1 Antibody
- Novus Biologicals Antibodies for YOD1
- Invitrogen Antibodies for YOD1 (AFLGC-YOD1)
-
Biorbyt antibodies for YOD1
-
Boster Bio Antibodies for YOD1
Protein Products
-
OriGene Purified Proteins for YOD1
- Search Origene for MassSpec and Protein Over-expression Lysates for YOD1
- Origene Custom Protein Services for YOD1
- Novus Biologicals proteins for YOD1
- ProSpec Recombinant Proteins for YOD1
Domains & Families for YOD1 Gene
Gene Families for YOD1 Gene
- HGNC:
- Human Protein Atlas (HPA):
-
- Enzymes
- Predicted intracellular proteins
Protein Domains for YOD1 Gene
- InterPro:
- ProtoNet:
Suggested Antigen Peptide Sequences for YOD1 Gene
- GenScript: Design optimal peptide antigens:
-
- OTU domain-containing protein 2 (OTU1_HUMAN)
Graphical View of Domain Structure for InterPro Entry
Q5VVQ6UniProtKB/Swiss-Prot:
OTU1_HUMAN :- The UBAX-like region mediates the interaction with VCP. According to PubMed:19818707, it corresponds to a UBX domain, which is a hallmark for VCP-associated proteins. However, no canonical UBX is detected by prediction tools such as Pfam or PROSITE.
- Domain:
-
- The UBAX-like region mediates the interaction with VCP. According to PubMed:19818707, it corresponds to a UBX domain, which is a hallmark for VCP-associated proteins. However, no canonical UBX is detected by prediction tools such as Pfam or PROSITE.
- The C2H2-type zinc finger mediates specificity for 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin chains but not for 'Lys-11'-linked ubiquitin chains. Selectivity for 'Lys-11'-linked ubiquitin chains is provided by recognition of the sequence surrounding 'Lys-11' in ubiquitin. The S2 site region provides specificity for longer 'Lys-11'-linked ubiquitin chains (PubMed:23827681).
Function for YOD1 Gene
Molecular function for YOD1 Gene
- UniProtKB/Swiss-Prot Function:
- Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin chains. Also able to hydrolyze 'Lys-11'-linked ubiquitin chains. Cleaves both polyubiquitin and di-ubiquitin. May play a role in macroautophagy, regulating for instance the clearance of damaged lysosomes. May recruit PLAA, UBXN6 and VCP to damaged lysosome membranes decorated with K48-linked ubiquitin chains and remove these chains allowing autophagosome formation (PubMed:27753622).
- UniProtKB/Swiss-Prot CatalyticActivity:
- Reaction=Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).; EC=3.4.19.12; Evidence={ECO:0000269|PubMed:19818707, ECO:0000269|PubMed:23827681};.
Enzyme Numbers (IUBMB) for YOD1 Gene
Phenotypes From GWAS Catalog for YOD1 Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0003676 | nucleic acid binding | IEA | -- |
| GO:0004843 | thiol-dependent ubiquitin-specific protease activity | IBA,IDA | 19818707 |
| GO:0005515 | protein binding | IPI | 19818707 |
| GO:0008233 | peptidase activity | IEA | -- |
| GO:0008234 | cysteine-type peptidase activity | IEA | -- |
Phenotypes for YOD1 Gene
Animal Model Products
- Taconic Biosciences: Generate A Custom CRISPR Mouse Model For Your Study
CRISPR Products
- Applied Biological Materials (abm): CRISPR Clones for YOD1 - Select products 50% OFF >
- * YOD1 CRISPR as ready-to-use vector or virus: ORF | Lenti- | Adeno- | AAV- | Protein Vector - Browse All
- * Gene synthesis, site-directed mutagenesis, subcloning, and more services - Browse All
-
OriGene CRISPR knockouts for YOD1
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for YOD1
-
Santa Cruz Biotechnology (SCBT) CRISPR for YOD1
miRNA for YOD1 Gene
- miRTarBase miRNAs that target YOD1
-
- mmu-miR-181a-5p (MIRT014308)
- hsa-miR-361-5p (MIRT020095)
- hsa-miR-125a-5p (MIRT021311)
- hsa-miR-30b-5p (MIRT023456)
- hsa-miR-181a-5p (MIRT025189)
- hsa-miR-98-5p (MIRT027868)
- hsa-miR-93-5p (MIRT028105)
- hsa-miR-26b-5p (MIRT030163)
- hsa-miR-24-3p (MIRT030622)
- hsa-miR-21-5p (MIRT031078)
- hsa-miR-221-3p (MIRT046938)
- hsa-miR-10a-5p (MIRT047617)
- hsa-miR-412-3p (MIRT062013)
- hsa-miR-3156-5p (MIRT062021)
- hsa-miR-5582-3p (MIRT062025)
- hsa-miR-6754-3p (MIRT062027)
- hsa-miR-7161-3p (MIRT062029)
- hsa-miR-6804-5p (MIRT062051)
- hsa-miR-583 (MIRT132891)
- hsa-miR-655-3p (MIRT132893)
- hsa-miR-374c-5p (MIRT132910)
- hsa-miR-374a-5p (MIRT184111)
- hsa-miR-374b-5p (MIRT184112)
- hsa-miR-550a-5p (MIRT247274)
- hsa-miR-550a-3-5p (MIRT247275)
- hsa-miR-1271-3p (MIRT247276)
- hsa-miR-4728-3p (MIRT269819)
- hsa-miR-4772-5p (MIRT269879)
- hsa-miR-181a-2-3p (MIRT269886)
- hsa-miR-643 (MIRT334949)
- hsa-miR-6733-3p (MIRT334981)
- hsa-miR-6776-5p (MIRT334989)
- hsa-miR-498 (MIRT383976)
- mmu-miR-21a-5p (MIRT437931)
- hsa-miR-20a-5p (MIRT439269)
- hsa-miR-106b-5p (MIRT439271)
- hsa-miR-1303 (MIRT463769)
- hsa-miR-550b-2-5p (MIRT463770)
- hsa-miR-127-5p (MIRT463771)
- hsa-miR-3606-5p (MIRT463772)
- hsa-miR-6866-5p (MIRT463773)
- hsa-miR-877-5p (MIRT463774)
- hsa-miR-142-3p (MIRT463775)
- hsa-miR-6073 (MIRT463776)
- hsa-miR-4455 (MIRT463777)
- hsa-miR-6077 (MIRT463778)
- hsa-miR-4312 (MIRT463779)
- hsa-miR-6806-3p (MIRT463780)
- hsa-miR-3928-5p (MIRT463781)
- hsa-miR-6128 (MIRT463782)
- hsa-miR-1298-3p (MIRT463783)
- hsa-miR-3126-3p (MIRT463784)
- hsa-miR-7-5p (MIRT463785)
- hsa-miR-661 (MIRT505119)
- hsa-miR-3116 (MIRT505120)
- hsa-miR-1254 (MIRT505121)
- hsa-miR-8073 (MIRT505122)
- hsa-miR-221-5p (MIRT505123)
- hsa-miR-888-5p (MIRT505124)
- hsa-miR-144-3p (MIRT505125)
- hsa-miR-576-5p (MIRT505126)
- hsa-miR-4263 (MIRT505127)
- hsa-miR-4680-3p (MIRT505128)
- hsa-miR-3691-3p (MIRT505129)
- hsa-miR-1255b-2-3p (MIRT505130)
- hsa-miR-548l (MIRT505131)
- hsa-miR-8054 (MIRT505132)
- hsa-miR-548k (MIRT505133)
- hsa-miR-548av-5p (MIRT505134)
- hsa-miR-559 (MIRT505135)
- hsa-miR-548y (MIRT505136)
- hsa-miR-548w (MIRT505137)
- hsa-miR-548o-5p (MIRT505138)
- hsa-miR-548j-5p (MIRT505139)
- hsa-miR-548i (MIRT505140)
- hsa-miR-548h-5p (MIRT505141)
- hsa-miR-548d-5p (MIRT505142)
- hsa-miR-548c-5p (MIRT505143)
- hsa-miR-548bb-5p (MIRT505144)
- hsa-miR-548b-5p (MIRT505145)
- hsa-miR-548ay-5p (MIRT505146)
- hsa-miR-548au-5p (MIRT505147)
- hsa-miR-548as-5p (MIRT505148)
- hsa-miR-548ar-5p (MIRT505149)
- hsa-miR-548aq-5p (MIRT505150)
- hsa-miR-548ap-5p (MIRT505151)
- hsa-miR-548am-5p (MIRT505152)
- hsa-miR-548ak (MIRT505153)
- hsa-miR-548ae-5p (MIRT505154)
- hsa-miR-548ad-5p (MIRT505155)
- hsa-miR-548ab (MIRT505156)
- hsa-miR-548a-5p (MIRT505157)
- hsa-miR-302c-3p (MIRT505158)
- hsa-miR-302a-3p (MIRT505159)
- hsa-miR-302b-3p (MIRT505160)
- hsa-miR-520d-3p (MIRT505161)
- hsa-miR-302d-3p (MIRT505162)
- hsa-miR-302e (MIRT505163)
- hsa-miR-520c-3p (MIRT505164)
- hsa-miR-520b (MIRT505165)
- hsa-miR-520a-3p (MIRT505166)
- hsa-miR-372-3p (MIRT505167)
- hsa-miR-373-3p (MIRT505168)
- hsa-miR-520e (MIRT505169)
- hsa-miR-520f-3p (MIRT505170)
- hsa-miR-548o-3p (MIRT510504)
- hsa-miR-1323 (MIRT510505)
- hsa-miR-3658 (MIRT510506)
- hsa-miR-3653-3p (MIRT510507)
- hsa-miR-4650-3p (MIRT510508)
- hsa-miR-383-5p (MIRT510509)
- hsa-miR-6831-5p (MIRT510510)
- hsa-miR-2115-3p (MIRT510511)
- hsa-miR-3927-3p (MIRT510512)
- hsa-let-7b-5p (MIRT510513)
- hsa-let-7d-5p (MIRT510514)
- hsa-let-7a-5p (MIRT510515)
- hsa-let-7c-5p (MIRT510516)
- hsa-let-7g-5p (MIRT510517)
- hsa-let-7e-5p (MIRT510518)
- hsa-let-7f-5p (MIRT510519)
- hsa-let-7i-5p (MIRT510520)
- hsa-miR-4500 (MIRT510521)
- hsa-miR-4458 (MIRT510522)
- hsa-miR-670-5p (MIRT520022)
- hsa-miR-4732-3p (MIRT520023)
- hsa-miR-324-5p (MIRT520024)
- hsa-miR-4319 (MIRT520025)
- hsa-miR-125b-5p (MIRT520026)
- hsa-miR-6818-5p (MIRT520027)
- hsa-miR-5706 (MIRT520028)
- hsa-miR-4782-5p (MIRT520029)
- hsa-miR-516b-5p (MIRT520030)
- hsa-miR-1299 (MIRT520031)
- hsa-miR-1294 (MIRT520032)
- hsa-miR-4316 (MIRT520033)
- hsa-miR-4764-5p (MIRT520034)
- hsa-miR-202-3p (MIRT520035)
- hsa-miR-676-5p (MIRT520036)
- hsa-miR-6839-5p (MIRT520037)
- hsa-miR-378j (MIRT520038)
- hsa-miR-1237-3p (MIRT520039)
- hsa-miR-3614-3p (MIRT520040)
- hsa-miR-196a-5p (MIRT520041)
- hsa-miR-196b-5p (MIRT520042)
- hsa-miR-197-3p (MIRT533089)
- hsa-miR-513b-3p (MIRT533090)
- hsa-miR-17-5p (MIRT533091)
- hsa-miR-526b-3p (MIRT533092)
- hsa-miR-20b-5p (MIRT533093)
- hsa-miR-519d-3p (MIRT533094)
- hsa-miR-106a-5p (MIRT533095)
- hsa-miR-6516-5p (MIRT533096)
- hsa-miR-3678-3p (MIRT533097)
- hsa-miR-1273h-3p (MIRT533098)
- hsa-miR-298 (MIRT533099)
- hsa-miR-4735-5p (MIRT533100)
- hsa-miR-520h (MIRT533101)
- hsa-miR-520g-3p (MIRT533102)
- hsa-miR-3973 (MIRT533103)
- hsa-miR-551b-5p (MIRT533104)
- hsa-miR-4659b-3p (MIRT542594)
- hsa-miR-4659a-3p (MIRT542595)
- hsa-miR-6875-3p (MIRT542596)
- hsa-miR-6741-5p (MIRT542597)
- hsa-miR-449c-3p (MIRT542598)
- hsa-miR-9-3p (MIRT542599)
- hsa-miR-3160-5p (MIRT542600)
- hsa-miR-4731-5p (MIRT542601)
- hsa-miR-5589-5p (MIRT542602)
- hsa-miR-8086 (MIRT542603)
- hsa-miR-3692-5p (MIRT542604)
- hsa-miR-1283 (MIRT542605)
- hsa-miR-5692c (MIRT542606)
- hsa-miR-6882-5p (MIRT542607)
- hsa-miR-5692b (MIRT542608)
- hsa-miR-4429 (MIRT542609)
- hsa-miR-320d (MIRT542610)
- hsa-miR-320c (MIRT542611)
- hsa-miR-320b (MIRT542612)
- hsa-miR-320a (MIRT542613)
- hsa-miR-369-3p (MIRT542614)
- hsa-miR-34a-5p (MIRT552751)
- hsa-miR-4460 (MIRT552752)
- hsa-miR-4727-3p (MIRT552753)
- hsa-miR-4711-3p (MIRT552754)
- hsa-miR-550a-3p (MIRT552755)
- hsa-miR-200c-5p (MIRT552756)
- hsa-miR-1193 (MIRT552757)
- hsa-miR-8069 (MIRT552758)
- hsa-miR-218-2-3p (MIRT552759)
- hsa-miR-6718-5p (MIRT552760)
- hsa-miR-203b-5p (MIRT552761)
- hsa-miR-2392 (MIRT552762)
- hsa-miR-140-5p (MIRT552763)
- hsa-miR-8061 (MIRT561359)
- hsa-miR-4760-5p (MIRT561360)
- hsa-miR-3145-3p (MIRT561361)
- hsa-miR-7157-5p (MIRT561362)
- hsa-miR-4310 (MIRT561363)
- hsa-miR-3120-3p (MIRT561364)
- hsa-miR-6507-3p (MIRT561365)
- mmu-miR-466q (MIRT595831)
- hsa-miR-875-3p (MIRT782522)
miRNA Products
Inhibitory RNA Products
- Origene shrna, sirna, and RNAi products in human, mouse, rat for YOD1
- Browse OriGene Inhibitory RNA Products For YOD1
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for YOD1
Clone Products
- Applied Biological Materials (abm): Clones for YOD1 - Select products 50% OFF >
- * YOD1 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
- * Gene synthesis, site-directed mutagenesis, subcloning, and more services - Browse All
- Sino Biological Human cDNA Clone for YOD1
- Addgene plasmids for YOD1
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for YOD1
Cell Line Products
-
Horizon Cell Lines for YOD1
No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for YOD1 Gene
Localization for YOD1 Gene
Subcellular locations from UniProtKB/Swiss-Prot for YOD1 Gene
- Cytoplasm. Note=Recruited to damaged lysosomes decorated with K48-linked ubiquitin chains. {ECO:0000269 PubMed:27753622}.
| Compartment | Confidence |
|---|---|
| nucleus | 4 |
| cytosol | 4 |
| plasma membrane | 3 |
| cytoskeleton | 2 |
| endoplasmic reticulum | 2 |
| extracellular | 1 |
| mitochondrion | 1 |
| endosome | 1 |
| lysosome | 1 |
| golgi apparatus | 1 |
- Cytosol (3)
- Nucleoplasm (3)
- Plasma membrane (3)
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005737 | cytoplasm | IEA,IDA | 27753622 |
| GO:0005829 | cytosol | TAS | -- |
Pathways & Interactions for YOD1 Gene
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | Metabolism of proteins | ||
| 2 | Protein processing in endoplasmic reticulum | ||
| 3 | Protein ubiquitination | ||
| 4 | Deubiquitination |
.74
|
|
| 5 | Ovarian tumor domain proteases | ||
Pathways by source for YOD1 Gene
4 Reactome pathways for YOD1 Gene
1 KEGG pathway for YOD1 Gene
1 R&D Systems pathway for YOD1 Gene
Interacting Proteins for YOD1 Gene
Selected Interacting proteins:
Q5VVQ6-OTU1_HUMAN
ENSP00000326813
for YOD1 Gene via
UniProtKB
STRING
IID
GPS-Prot Interaction Network for YOD1
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0006508 | proteolysis | IEA | -- |
| GO:0006986 | response to unfolded protein | IEA | -- |
| GO:0016236 | macroautophagy | IMP | 27753622 |
| GO:0016579 | protein deubiquitination | IBA,TAS | -- |
| GO:0030433 | ubiquitin-dependent ERAD pathway | IBA,IMP | 19818707 |
No data available for SIGNOR curated interactions for YOD1 Gene
Transcripts for YOD1 Gene
mRNA/cDNA for YOD1 Gene
- 2 REFSEQ mRNAs :
- 4 NCBI additional mRNA sequence :
- 2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
-
- ENST00000315927 6265 nts (view in UCSC)
- ENST00000367084 6291 nts (view in UCSC)
CRISPR Products
- Applied Biological Materials (abm): CRISPR Clones for YOD1 - Select products 50% OFF >
- * YOD1 CRISPR as ready-to-use vector or virus: ORF | Lenti- | Adeno- | AAV- | Protein Vector - Browse All
- * Gene synthesis, site-directed mutagenesis, subcloning, and more services - Browse All
-
OriGene CRISPR knockouts for YOD1
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for YOD1
-
Santa Cruz Biotechnology (SCBT) CRISPR for YOD1
miRNA Products
Inhibitory RNA Products
- Origene shrna, sirna, and RNAi products in human, mouse, rat for YOD1
- Browse OriGene Inhibitory RNA Products For YOD1
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for YOD1
Clone Products
- Applied Biological Materials (abm): Clones for YOD1 - Select products 50% OFF >
- * YOD1 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
- * Gene synthesis, site-directed mutagenesis, subcloning, and more services - Browse All
- Sino Biological Human cDNA Clone for YOD1
- Addgene plasmids for YOD1
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for YOD1
Relevant External Links for YOD1 Gene
- GeneLoc Exon Structure for
- YOD1
Expression for YOD1 Gene
mRNA differential expression in normal tissues according to GTEx for YOD1 Gene
This gene is overexpressed in Esophagus - Mucosa (x6.7).
This gene is overexpressed in Cervix (50.9) and Peripheral blood mononuclear cells (8.6).
Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for YOD1 Gene
Transcriptomic regulation report from SPP (The Signaling Pathways Project) for YOD1
SOURCE GeneReport for Unigene cluster for YOD1 Gene:
Hs.567533Evidence on tissue expression from TISSUES for YOD1 Gene
- Nervous system(4.6)
- Skin(2)
Primer Products
-
OriGene qPCR primer pairs for YOD1
Gene Expression Assay Products
No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for YOD1 Gene
Orthologs for YOD1 Gene
This gene was present in the common ancestor of eukaryotes.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| Chimpanzee (Pan troglodytes) |
Mammalia | YOD1 30 31 |
|
OneToOne | |
| Cow (Bos Taurus) |
Mammalia | YOD1 30 31 |
|
OneToOne | |
| Dog (Canis familiaris) |
Mammalia | YOD1 30 31 |
|
OneToOne | |
| Rat (Rattus norvegicus) |
Mammalia | Yod1 30 |
|
||
| Mouse (Mus musculus) |
Mammalia | Yod1 30 17 31 |
|
OneToOne | |
| Platypus (Ornithorhynchus anatinus) |
Mammalia | YOD1 31 |
|
OneToOne | |
| Oppossum (Monodelphis domestica) |
Mammalia | YOD1 31 |
|
OneToOne | |
| Chicken (Gallus gallus) |
Aves | YOD1 30 31 |
|
OneToOne | |
| Lizard (Anolis carolinensis) |
Reptilia | YOD1 31 |
|
OneToOne | |
| Tropical Clawed Frog (Silurana tropicalis) |
Amphibia | yod1 30 |
|
||
| Zebrafish (Danio rerio) |
Actinopterygii | yod1 30 31 |
|
OneToOne | |
| Fruit Fly (Drosophila melanogaster) |
Insecta | CG4603 30 31 |
|
OneToOne | |
| African malaria mosquito (Anopheles gambiae) |
Insecta | AgaP_AGAP007001 30 |
|
||
| Baker's yeast (Saccharomyces cerevisiae) |
Saccharomycetes | OTU1 30 31 33 |
|
OneToOne | |
| K. Lactis Yeast (Kluyveromyces lactis) |
Saccharomycetes | KLLA0D05599g 30 |
|
||
| A. gosspyii yeast (Eremothecium gossypii) |
Saccharomycetes | AGOS_ABR233W 30 |
|
||
| Thale Cress (Arabidopsis thaliana) |
eudicotyledons | AT1G50670 30 |
|
||
| Rice (Oryza sativa) |
Liliopsida | Os02g0164800 30 |
|
||
| Bread mold (Neurospora crassa) |
Ascomycetes | NCU02353 30 |
|
||
| Fission Yeast (Schizosaccharomyces pombe) |
Schizosaccharomycetes | otu1 30 |
|
- Species where no ortholog for YOD1 was found in the sources mined by GeneCards:
-
- Actinobacteria (Mycobacterium tuberculosis)
- African clawed frog (Xenopus laevis)
- Alicante grape (Vitis vinifera)
- Alpha proteobacteria (Wolbachia pipientis)
- Amoeba (Dictyostelium discoideum)
- Archea (Pyrococcus horikoshii)
- Barley (Hordeum vulgare)
- Beta proteobacteria (Neisseria meningitidis)
- Chromalveolata (Phytophthora infestans)
- Common water flea (Daphnia pulex)
- Corn (Zea mays)
- E. coli (Escherichia coli)
- Filamentous fungi (Aspergillus nidulans)
- Firmicute Bacteria (Streptococcus pneumoniae)
- Green Algae (Chlamydomonas reinhardtii)
- Honey Bee (Apis mellifera)
- Loblloly Pine (Pinus taeda)
- Malaria Parasite (Plasmodium falciparum)
- Medicago Trunc (Medicago Truncatula)
- Moss (Physcomitrella patens)
- Orangutan (Pongo pygmaeus)
- Pig (Sus scrofa)
- Rainbow Trout (Oncorhynchus mykiss)
- Rice Blast Fungus (Magnaporthe grisea)
- Schistosome Parasite (Schistosoma mansoni)
- Sea Anemone (Nematostella vectensis)
- Sea Vase (Ciona intestinalis)
- Sea Squirt (Ciona savignyi)
- Sea Urchin (Strongylocentrotus purpuratus)
- Sorghum (Sorghum bicolor)
- Soybean (Glycine max)
- Stem Rust Fungus (Puccinia graminis)
- Sugarcane (Saccharum officinarum)
- Tomato (Lycopersicon esculentum)
- Toxoplasmosis (Toxoplasma gondii)
- Trichoplax (Trichoplax adhaerens)
- Wheat (Triticum aestivum)
- Worm (Caenorhabditis elegans)
Evolution for YOD1 Gene
- ENSEMBL:
- Gene Tree for YOD1 (if available)
- TreeFam:
- Gene Tree for YOD1 (if available)
- Aminode:
- Evolutionary constrained regions (ECRs) for YOD1: view image
Paralogs for YOD1 Gene
No data available for Paralogs for YOD1 Gene
Variants for YOD1 Gene
Residual Variation Intolerance Score:
21.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score:
1.01;
20.69% of all genes are more intolerant (likely to be disease-causing)
Additional Variant Information for YOD1 Gene
- SNPedia medical, phenotypic, and genealogical associations of SNPs for
- YOD1
SNP Genotyping and Copy Number Assay Products
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for YOD1 Gene
Disorders for YOD1 Gene
| Disorder | Aliases | PubMed IDs |
|---|---|---|
| brown-sequard syndrome |
|
|
Search YOD1 in MalaCards
View complete list of genes associated with diseases
Additional Disease Information for YOD1
- Genetic Association Database
- (GAD)
- ATLAS of Genetics and Cytogenetics in Oncology and Haematology
- Open Targets Platform
No data available for UniProtKB/Swiss-Prot and Genatlas for YOD1 Gene
Publications for YOD1 Gene
- VCP/p97 cooperates with YOD1, UBXD1 and PLAA to drive clearance of ruptured lysosomes by autophagy. (PMID: 27753622) Papadopoulos C … Meyer H (The EMBO journal 2017) 3 4
- OTU deubiquitinases reveal mechanisms of linkage specificity and enable ubiquitin chain restriction analysis. (PMID: 23827681) Mevissen TE … Komander D (Cell 2013) 3 4
- The otubain YOD1 is a deubiquitinating enzyme that associates with p97 to facilitate protein dislocation from the ER. (PMID: 19818707) Ernst R … Schlieker C (Molecular cell 2009) 3 4
- The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
ExternalLinks
Products for YOD1 Gene
- Custom Antibody Services
- Browse OriGene ELISA Kits
- Custom Assay Services
- OriGene Purified Proteins for YOD1
- Search Origene for MassSpec and Protein Over-expression Lysates for YOD1
- Origene Custom Protein Services for YOD1
- Origene shrna, sirna, and RNAi products in human, mouse, rat for YOD1
- Browse OriGene Inhibitory RNA Products For YOD1
- OriGene qPCR primer pairs for YOD1
- OriGene CRISPR knockouts for YOD1
- Custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
- Browse OriGene miRNA Products For YOD1
- Sino Biological Human cDNA Clone for YOD1
- Browse Sino Biological Recombinant Proteins
- Browse Sino Biological Cell Lysates
- Browse Sino Biological Antibodies
- Browse Sino Biological Assays
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- Browse CRO Services
- High-throughput Antibody Production Service
- Protein Production Service
- Epitope Tag Antibodies & Reporter Protein Antibodies
- Lentiviral ORF Clones
- Novus Biologicals Antibodies for YOD1
- Novus Biologicals proteins for YOD1
- Browse Antibodies
- Browse Peptides and Proteins
- Browse Lysates
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- VectorBuilder Custom and pre-made DNA vectors for YOD1 (ie. gene expression, shRNA knockdown, CRISPR)
- VectorBuilder Viral vectors for YOD1 (ie. lentivirus, AAV, adenovirus)
- VectorBuilder CRISPR vectors for YOD1 (ie. knockout, knockin, CRISPRa, CRISPRi)
- VectorBuilder Virus packaging for YOD1 CRISPR vectors (ie. lentivirus, AAV, adenovirus)
- VectorBuilder Stable cell line generation for YOD1
- Addgene plasmids for YOD1
- antibodies-online: Show 13 available YOD1 Antibodies ranked by validation data
- Compare Top YOD1 Antibodies
- antibodies-online: Search results for available YOD1 related products ranked by validation data
- antibodies-online: Show 9 available YOD1 Proteins ranked by validation data
- Compare Top YOD1 Proteins
- Horizon Cell Lines for YOD1
- Browse GeneCopoeia Cell Lines
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for YOD1
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for YOD1
- Search GeneCopoeia for miRNA 3'UTR Target clone products for YOD1
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for YOD1
- Boster Bio Antibodies for YOD1
- Browse Boster Bio ELISA Kits
- Biorbyt antibodies for YOD1
Sources for YOD1 Gene
- (1) GeneCards
- (2) HGNC
- (3) NCBI Entrez Gene
- (4) UniProtKB/Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) Cell Signaling Technology
- (12) GO
- (13) UniProtKB/TrEMBL
- (14) InterPro
- (15) ProtoNet
- (16) Blocks
- (17) MGI
- (18) IUBMB
- (19) KEGG
- (20) MINT
- (21) STRING
- (22) IntAct
- (23) Novoseek
- (24) PharmGKB
- (25) DrugBank
- (26) HMDB
- (27) ASD
- (28) SAGE
- (29) SOURCE
- (30) HomoloGene
- (31) PanEnsembl
- (32) euGenes
- (33) SGD
- (34) FlyBase
- (35) WormBase
- (36) Pseudogene
- (37) DGV
- (38) dbSNP
- (39) GenAtlas
- (40) HGMD
- (41) GAD
- (42) BGMUT
- (43) HuGE
- (44) Atlas
- (45) GenBank
- (46) HORDE
- (47) HUGE
- (48) IMGT
- (49) Leiden
- (50) miRBase
- (51) DME
- (52) OriGene
- (53) PubMed
- (54) R&D Systems
- (55) TGDB
- (56) Tocris
- (57) Abcam
- (58) Novus Biologicals
- (59) ProSpec
- (60) Sino Biological
- (61) GenScript
- (62) Qiagen
- (63) OCA
- (64) Proteopedia
- (65) MOPED
- (66) neXtProt
- (67) Reactome
- (68) GeneGo (Thomson Reuters)
- (69) DISEASES
- (70) SIMAP
- (71) GenomeRNAi
- (72) LifeMap
- (73) miRTarBase
- (74) MalaCards
- (75) Invitrogen
- (76) BitterDB
- (77) ESI-BIO
- (78) RefSeq
- (79) BioSystems
- (80) MaxQB
- (81) IUPHAR
- (82) BioGPS
- (83) Illumina
- (84) COMPARTMENTS
- (85) HOMER
- (86) PaxDb
- (87) ApexBio
- (88) Addgene
- (89) antibodies-online
- (90) CYP
- (91) NONCODE
- (92) TreeFam
- (93) PathCards
- (94) GeneReviews
- (95) GeneTex
- (96) Taconic Biosciences
- (97) GTEx
- (98) ProteomicsDB
- (99) SCBT
- (100) DGIdb
- (101) ClinicalTrials
- (102) RVIS
- (103) SIGNOR
- (104) diseasecard
- (105) NIH Rare Diseases
- (106) Orphanet
- (107) UMLS
- (108) GTR
- (109) Disease Ontology
- (110) Genetics Home Reference
- (111) MeSH
- (112) MedlinePlus
- (113) CDC
- (114) NINDS
- (115) NCBI Bookshelf
- (116) ClinVar
- (117) Gene Damage Index
- (118) HPO
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- (120) VISTA
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- (122) ENCODE
- (123) ProSci
- (124) Horizon
- (125) The Signaling Pathways Project (SPP)
- (126) IID
- (127) VectorBuilder
- (128) SNPedia
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- (130) CIViC
- (131) ProteoGenix
- (132) dbSUPER
- (133) TISSUES
- (134) Gene ORGANizer
- (135) abm
- (136) Human Protein Atlas
- (137) GWAS Catalog
- (138) Monarch Initiative
- (139) DataMed
- (140) HumanCyc
- (141) UCNEbase
- (142) EPDnew
- (143) Applied Biosystems
- (144) GlyConnect
- (145) Aminode
- (146) GeneCopoeia
- (147) GPS-Prot
- (148) RNACentral
- (149) LncRNADisease
- (150) LOVD
- (151) miR2Disease
- (152) DiseaseEnhancer
- (153) Boster Bio
- (154) Biorbyt
- (155) Biocompare
- (156) Mastermind
- (157) CTD^2 Dashboard
- (158) CraniofacialAtlas
- (159) GeneImprint
- (160) Synthego
- (161) ENA
- (162) GtRNAdb
- (163) LncBase
- (164) LncBook
- (165) LNCipedia
- (166) Modomics
- (167) PDBe
- (168) Rfam
- (169) SILVA
- (170) snOPY
- (171) SRPDB
- (172) GENCODE
- (173) TarBase
- (174) Signalway Antibody
- (175) Open Targets Platform
- (176) 5SRRNADB
- (177) snoDB
- (178) MirGeneDB