Imported Disease Annotations - CTDTerm | Qualifier | Evidence | With | Reference | Notes | Source | Original Reference(s) | hepatocellular carcinoma | | ISO | USP4 (Homo sapiens) | 11554173 | CTD Direct Evidence: marker/mechanism | CTD | PMID:35841383 | |
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Imported Disease Annotations - CTDTerm | Qualifier | Evidence | With | Reference | Notes | Source | Original Reference(s) | hepatocellular carcinoma | | ISO | USP4 (Homo sapiens) | 11554173 | CTD Direct Evidence: marker/mechanism | CTD | PMID:35841383 | |
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# | Reference Title | Reference Citation |
1. | 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. |
2. | GOA pipeline | RGD automated data pipeline |
3. | Data Import for Chemical-Gene Interactions | RGD automated import pipeline for gene-chemical interactions |
PMID:12477932 | PMID:16316627 | PMID:16339847 | PMID:16472766 | PMID:20595234 | PMID:22001210 | PMID:22871113 | PMID:27114249 | PMID:28755289 |
Usp4 (Rattus norvegicus - Norway rat) |
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USP4 (Homo sapiens - human) |
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Usp4 (Mus musculus - house mouse) |
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Usp4 (Chinchilla lanigera - long-tailed chinchilla) |
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LOC100967331 (Pan paniscus - bonobo/pygmy chimpanzee) |
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USP4 (Canis lupus familiaris - dog) |
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Usp4 (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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USP4 (Sus scrofa - pig) |
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USP4 (Chlorocebus sabaeus - green monkey) |
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Usp4 (Heterocephalus glaber - naked mole-rat) |
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Variants in Usp4
112 total Variants |
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. |
The following QTLs overlap with this region. | Full Report | CSV | TAB | Printer | Gviewer |
RH132731 |
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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 | 43 | 57 | 41 | 19 | 41 | 8 | 11 | 74 | 35 | 41 | 11 | 8 |
Low | |||||||||||||
Below cutoff |
RefSeq Transcripts | NM_001135012 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
XM_039080938 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063264999 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063265000 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063265001 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063265002 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XR_010053934 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
GenBank Nucleotide | AC128721 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
BC166460 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
JAXUCZ010000008 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
RefSeq Acc Id: | ENSRNOT00000083046 ⟹ ENSRNOP00000071463 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | ENSRNOT00000085609 ⟹ ENSRNOP00000069514 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | NM_001135012 ⟹ NP_001128484 | ||||||||||||||||||||||||
RefSeq Status: | VALIDATED | ||||||||||||||||||||||||
Type: | CODING | ||||||||||||||||||||||||
Position: |
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Sequence: |
RefSeq Acc Id: | XM_039080938 ⟹ XP_038936866 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_063264999 ⟹ XP_063121069 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XM_063265000 ⟹ XP_063121070 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XM_063265001 ⟹ XP_063121071 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XM_063265002 ⟹ XP_063121072 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XR_010053934 | ||||||||
Type: | NON-CODING | ||||||||
Position: |
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Protein RefSeqs | NP_001128484 | (Get FASTA) | NCBI Sequence Viewer |
XP_038936866 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063121069 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063121070 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063121071 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063121072 | (Get FASTA) | NCBI Sequence Viewer | |
GenBank Protein | AAI66460 | (Get FASTA) | NCBI Sequence Viewer |
B2GUZ1 | (Get FASTA) | NCBI Sequence Viewer | |
Ensembl Protein | ENSRNOP00000069514.1 | ||
ENSRNOP00000071463 | |||
ENSRNOP00000071463.1 | |||
ENSRNOP00055018684 | |||
ENSRNOP00060035127 | |||
ENSRNOP00065007471 |
RefSeq Acc Id: | NP_001128484 ⟸ NM_001135012 |
- UniProtKB: | B2GUZ1 (UniProtKB/Swiss-Prot), A6I350 (UniProtKB/TrEMBL), M0R851 (UniProtKB/TrEMBL) |
- Sequence: |
RefSeq Acc Id: | ENSRNOP00000071463 ⟸ ENSRNOT00000083046 |
RefSeq Acc Id: | ENSRNOP00000069514 ⟸ ENSRNOT00000085609 |
RefSeq Acc Id: | XP_038936866 ⟸ XM_039080938 |
- Peptide Label: | isoform X2 |
RefSeq Acc Id: | XP_063121069 ⟸ XM_063264999 |
- Peptide Label: | isoform X1 |
RefSeq Acc Id: | XP_063121070 ⟸ XM_063265000 |
- Peptide Label: | isoform X3 |
RefSeq Acc Id: | XP_063121071 ⟸ XM_063265001 |
- Peptide Label: | isoform X4 |
RefSeq Acc Id: | XP_063121072 ⟸ XM_063265002 |
- Peptide Label: | isoform X5 |
Name | Modeler | Protein Id | AA Range | Protein Structure |
AF-B2GUZ1-F1-model_v2 | AlphaFold | B2GUZ1 | 1-961 | view protein structure |
eQTL | View at Phenogen | |
WGCNA | View at Phenogen | |
Tissue/Strain Expression | View at Phenogen |
RGD ID: | 13696298 | ||||||||
Promoter ID: | EPDNEW_R6822 | ||||||||
Type: | initiation region | ||||||||
Name: | Usp4_1 | ||||||||
Description: | ubiquitin specific peptidase 4 | ||||||||
SO ACC ID: | SO:0000170 | ||||||||
Source: | EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/) | ||||||||
Experiment Methods: | Single-end sequencing. | ||||||||
Position: |
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Database | Acc Id | Source(s) |
AGR Gene | RGD:1587387 | AgrOrtholog |
BioCyc Gene | G2FUF-29146 | BioCyc |
Ensembl Genes | ENSRNOG00000054863 | Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
ENSRNOG00055013447 | UniProtKB/Swiss-Prot | |
ENSRNOG00060024441 | UniProtKB/Swiss-Prot | |
ENSRNOG00065006618 | UniProtKB/Swiss-Prot | |
Ensembl Transcript | ENSRNOT00000083046 | ENTREZGENE |
ENSRNOT00000083046.2 | UniProtKB/Swiss-Prot | |
ENSRNOT00000085609.2 | UniProtKB/TrEMBL | |
ENSRNOT00055023041 | UniProtKB/Swiss-Prot | |
ENSRNOT00060042387 | UniProtKB/Swiss-Prot | |
ENSRNOT00065010237 | UniProtKB/Swiss-Prot | |
Gene3D-CATH | 3.30.2230.10 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
Cysteine proteinases | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
IMAGE_CLONE | IMAGE:9027936 | IMAGE-MGC_LOAD |
InterPro | DUSP-like_sf | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
Papain-like_cys_pep_sf | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
Pept_C19_DUSP | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
Peptidase_C19_UCH | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
Ub_USP-typ | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
USP_CS | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
USP_dom | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
KEGG Report | rno:290864 | UniProtKB/Swiss-Prot |
MGC_CLONE | MGC:187765 | IMAGE-MGC_LOAD |
NCBI Gene | 290864 | ENTREZGENE |
PANTHER | UBIQUITIN CARBOXYL-TERMINAL HYDROLASE | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 4 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
Pfam | DUSP | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
Ubiquitin_3 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
UCH | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
PhenoGen | Usp4 | PhenoGen |
PROSITE | DUSP | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
USP_1 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
USP_2 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
USP_3 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
RatGTEx | ENSRNOG00000054863 | RatGTEx |
ENSRNOG00055013447 | RatGTEx | |
ENSRNOG00060024441 | RatGTEx | |
ENSRNOG00065006618 | RatGTEx | |
SMART | DUSP | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
Superfamily-SCOP | SSF143791 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
SSF54001 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
UniProt | A6I350 | ENTREZGENE, UniProtKB/TrEMBL |
B2GUZ1 | ENTREZGENE | |
M0R851 | ENTREZGENE, UniProtKB/TrEMBL | |
UBP4_RAT | UniProtKB/Swiss-Prot |
Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
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2016-04-13 | Usp4 | ubiquitin specific peptidase 4 | Usp4 | ubiquitin specific peptidase 4 (proto-oncogene) | Nomenclature updated to reflect human and mouse nomenclature | 1299863 | APPROVED |
2008-03-04 | Usp4 | ubiquitin specific peptidase 4 (proto-oncogene) | LOC290864 | similar to Ubiquitin carboxyl-terminal hydrolase 4 (Ubiquitin thiolesterase 4) (Ubiquitin-specific processing protease 4) (Deubiquitinating enzyme 4) (Ubiquitous nuclear protein) | Nomenclature updated to reflect human and mouse nomenclature | 1299863 | APPROVED |
2006-11-19 | LOC290864 | similar to Ubiquitin carboxyl-terminal hydrolase 4 (Ubiquitin thiolesterase 4) (Ubiquitin-specific processing protease 4) (Deubiquitinating enzyme 4) (Ubiquitous nuclear protein) | Symbol and Name status set to provisional | 70820 | PROVISIONAL |