FB2025_05 , released December 11, 2025
Gene: Dmel\Usp47
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General Information
Symbol
Dmel\Usp47
Species
D. melanogaster
Name
Ubiquitin specific protease 47
Annotation Symbol
CG5486
Feature Type
protein_coding_gene
FlyBase ID
FBgn0016756
Gene Model Status
Current
Stock Availability
9 publicly available
Enzyme Name (EC)
ubiquitinyl hydrolase 1 (3.4.19.12)
Gene Summary
Ubiquitin-specific protease that deubiquitinates target proteins to regulate different cellular and developmental pathways (PubMed:10949024, PubMed:18160715, PubMed:26169834, PubMed:27552662). Functions downstream of Dsor1/MEK to positively regulate the Ras/MAPK signaling pathway (PubMed:27552662). Likely to modulate the pathway during various cellular and developmental processes including rl/MAPK activation by the receptors InR, Egfr and sevenless/sev (PubMed:27552662). Functions in the post-translational stabilization of rl/MAPK levels in a mechanism that is independent of rl activity and opposes the activity of the E2 enzyme Unc6 and the putative E3 ligases poe, Ufd4 and Kcmf1, which mediate the ubiquitination and proteasomal degradation of rl (PubMed:27552662). During eye development it may also act downstream of rl/MAPK to negatively regulate the Ras/MAPK signaling pathway by stabilizing the transcriptional repressor ttk and consequently inhibiting photoreceptor cell development (PubMed:18160715). This suggests that at least during eye development, it may act in both the positive and negative regulation of the Ras/MAPK signaling pathway to mediate the development of different cell types (PubMed:18160715, PubMed:27552662). Positively regulates border follicle cell migration during oogenesis by mediating the deubiquitination and stabilization of slbo (PubMed:10949024). In the wing disks it positively regulates wg signaling by stabilizing arm (PubMed:26169834). Has an effect on position-effect variegation (PubMed:8816485). (UniProt, Q24574)
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

Ubp64E, E(var)3-64E, Ubp64, D-UBP-64E

Key Links
Genomic Location
Cytogenetic map
64E5-64E6
Sequence location
Recombination map
3-15
RefSeq locus
NT_037436 REGION:5752973..5761886
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (13 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
enables cysteine-type deubiquitinase activity
inferred from direct assay
(Bajpe et al., 2008)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables cysteine-type deubiquitinase activity
inferred from biological aspect of ancestor with PANTHER:PTN002541993
(GO Reference Genome Project, 2011-)
inferred from electronic annotation with InterPro:IPR001394, InterPro:IPR018200
(InterPro Project Members, 2004-)
Biological Process (10 terms)
Terms Based on Experimental Evidence (8 terms)
CV Term
Evidence
References
involved_in compound eye cone cell differentiation
inferred from mutant phenotype
(Bajpe et al., 2008)
inferred from genetic interaction with FLYBASE:ttk; FB:FBgn0003870
(Bajpe et al., 2008)
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process
inferred from direct assay
(Bajpe et al., 2008)
inferred from mutant phenotype
(Ashton-Beaucage et al., 2016)
involved_in positive regulation of canonical Wnt signaling pathway
inferred from mutant phenotype
(Kassel et al., 2023, Shi et al., 2015)
involved_in positive regulation of epidermal growth factor receptor signaling pathway
inferred from mutant phenotype
(Ashton-Beaucage et al., 2016)
involved_in positive regulation of ERK1 and ERK2 cascade
inferred from genetic interaction with FLYBASE:rl; FB:FBgn0003256
(Ashton-Beaucage et al., 2016)
involved_in positive regulation of insulin receptor signaling pathway
inferred from mutant phenotype
(Ashton-Beaucage et al., 2016)
involved_in positive regulation of sevenless signaling pathway
inferred from genetic interaction with FLYBASE:sev; FB:FBgn0003366
(Ashton-Beaucage et al., 2016)
involved_in protein stabilization
inferred from genetic interaction with FLYBASE:slbo; FB:FBgn0005638
(Rorth et al., 2000)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in protein deubiquitination
inferred from electronic annotation with InterPro:IPR001394
(InterPro Project Members, 2004-)
involved_in regulation of protein stability
inferred from biological aspect of ancestor with PANTHER:PTN002541993
(GO Reference Genome Project, 2011-)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
located_in cytosol
inferred from direct assay
(Bajpe et al., 2008)
located_in nucleus
inferred from direct assay
(Bajpe et al., 2008)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
is_active_in cytosol
inferred from biological aspect of ancestor with PANTHER:PTN002541993
(GO Reference Genome Project, 2011-)
is_active_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN002541993
(GO Reference Genome Project, 2011-)
Gene Group (FlyBase)
Pathway (FlyBase)
Protein Family (UniProt)
Belongs to the peptidase C19 family. (Q24574)
Protein Signatures (InterPro)
Catalytic Activity (EC/Rhea)
cysteine-type deubiquitinase activity
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) (3.4.19.12)
Summaries
Gene Group (FlyBase)
USP DEUBIQUITINASES -
The Ubiquitin Specific Proteases (USP) is the largest sub-family of deubiquitinases. They are cysteine proteases and catalyze the removal of ubiquitin from ubiquitin chains and ubiquitinated proteins. USP deubiquitinases belong to MEROPS family C19. (Adapted from PMID:19626045).
Pathway (FlyBase)
POSITIVE REGULATORS OF WNT-TCF SIGNALING PATHWAY -
Positive regulators of Wnt-TCF (canonical Wnt) signaling up-regulate the pathway, resulting in the enhancement of transcriptional regulation mediated by β-catenin (arm).
POSITIVE REGULATORS OF INSULIN-LIKE RECEPTOR SIGNALING PATHWAY -
Positive regulators of the Insulin-like Receptor signaling pathway enhance Insulin-like receptor (InR) activation or the activity of intracellular effectors. (Adapted from FBrf0232297, FBrf0230017 and FBrf0229989).
POSITIVE REGULATORS OF SEVENLESS SIGNALING PATHWAY -
Positive regulators of Sevenless signaling up-regulate the pathway, promoting cell fate to that of an R7 photoreceptor. (Adapted from FBrf0127283 and FBrf0221727).
POSITIVE REGULATORS OF EGFR SIGNALING PATHWAY -
Positive regulators of Epidermal Growth Factor Receptor signaling up-regulate the pathway, enhancing the activation of ERK kinase (rl) or acting on downstream effectors.
Protein Function (UniProtKB)
Ubiquitin-specific protease that deubiquitinates target proteins to regulate different cellular and developmental pathways (PubMed:10949024, PubMed:18160715, PubMed:26169834, PubMed:27552662). Functions downstream of Dsor1/MEK to positively regulate the Ras/MAPK signaling pathway (PubMed:27552662). Likely to modulate the pathway during various cellular and developmental processes including rl/MAPK activation by the receptors InR, Egfr and sevenless/sev (PubMed:27552662). Functions in the post-translational stabilization of rl/MAPK levels in a mechanism that is independent of rl activity and opposes the activity of the E2 enzyme Unc6 and the putative E3 ligases poe, Ufd4 and Kcmf1, which mediate the ubiquitination and proteasomal degradation of rl (PubMed:27552662). During eye development it may also act downstream of rl/MAPK to negatively regulate the Ras/MAPK signaling pathway by stabilizing the transcriptional repressor ttk and consequently inhibiting photoreceptor cell development (PubMed:18160715). This suggests that at least during eye development, it may act in both the positive and negative regulation of the Ras/MAPK signaling pathway to mediate the development of different cell types (PubMed:18160715, PubMed:27552662). Positively regulates border follicle cell migration during oogenesis by mediating the deubiquitination and stabilization of slbo (PubMed:10949024). In the wing disks it positively regulates wg signaling by stabilizing arm (PubMed:26169834). Has an effect on position-effect variegation (PubMed:8816485).
(UniProt, Q24574)
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\Usp47 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q24574)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.44

Gene model reviewed during 5.45

Gene model reviewed during 5.56

Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Usp47-RA
FBtr0077095
NM_168129
5475
1556
Usp47-RB
FBtr0077096
NM_079213
4835
1556
Usp47-RD
FBtr0306259
NM_206279
5493
1538
Additional Transcript Data and Comments
Reported size (kB)

5.0 (northern blot)

(Henchoz et al., 1996)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
Usp47-PA
FBpp0076802
173.8
1556
5.35
Q24574
NP_729087
AAF50752
Usp47-PB
FBpp0076803
173.8
1556
5.35
Q24574
NP_523937
AAN12105
Usp47-PD
FBpp0297369
171.9
1538
5.43
NP_996001
AAS65076
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

1556 aa isoforms: Usp47-PA, Usp47-PB
Additional Polypeptide Data and Comments
Reported size (kDa)

898 (aa)

(Henchoz et al., 1996)
Comments
External Data
Subunit Structure (UniProtKB)

Interacts with ttk.

(UniProt, Q24574)
Crossreferences
InterPro - A database of protein families, domains and functional sites
MEROPS - An information resource for peptidases (also termed proteases, proteinases and proteolytic enzymes) and the proteins that inhibit them.
Linkouts
Sequences Consistent with the Gene Model
Nucleotide / Polypeptide Records
 
UniProt
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Usp47 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

1.42

Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 1 -- 17
organism | ubiquitous
(Henchoz et al., 1996)
embryonic stage 4 -- 6
organism | intense | ubiquitous
(Fisher et al., 2012)
embryonic stage 7 -- 8
organism | intense | ubiquitous
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 9 -- 10
organism | intense | ubiquitous
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | intense | ubiquitous
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 13 -- 16
dorsal pharyngeal muscle cell
(Fisher et al., 2012)
larval muscle system
(Fisher et al., 2012)
larval somatic muscle cell
(Fisher et al., 2012)
larval visceral muscle cell
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 14 -- 16
larval central nervous system
(Henchoz et al., 1996)
wandering third instar larval stage
wing pouch | restricted
(Molnar et al., 2012)
wing hinge primordium | restricted
(Molnar et al., 2012)
northern blot
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage
organism | ubiquitous
(Henchoz et al., 1996)
embryonic stage -- adult stage
(Henchoz et al., 1996)
Additional Descriptive Data

Usp47 transcripts are detected throughout development on northern blots. The transcripts were observed to be ubiquitous and strongly expressed in embryos by in situ hybridization. The central nervous system is strongly stained in stages 14-16.

(Henchoz et al., 1996)
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in cytosol
inferred from direct assay
(Bajpe et al., 2008)
located_in nucleus
inferred from direct assay
(Bajpe et al., 2008)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Usp47 in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 22 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 15 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Usp47
Transgenic constructs containing regulatory region of Usp47
Aberrations (Deficiencies and Duplications) ( 1 )
Inferred from experimentation ( 1 )
Gene disrupted in
Df(3L)Exel6107
(Ryder, 2004.4.26)
Inferred from location ( 4 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal, with Scer\GAL4Act5C.PI
lethal - all die during P-stage, with Scer\GAL4Mef2.PR
viable
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4tin.CΔ4
Sterility
Allele
fertile
Other Phenotypes
Allele
abnormal locomotor behavior | adult stage, with Scer\GAL4elav.PU
abnormal locomotor behavior | adult stage, with Scer\GAL4sqh.PW
enhancer of variegation | dominant, with In(1)wm4h
increased mortality during development | conditional, with Scer\GAL4da.PU
radiation sensitive | third instar larval stage, with Scer\GAL4da.PU
short lived, with Scer\GAL4elav.PU
short lived, with Scer\GAL4sqh.PW
visible
visible, with Scer\GAL4GMR.PF
visible | adult stage, with Scer\GAL4Bx-MS1096
Phenotype manifest in
Allele
cone cell | pupal stage
cone cell | pupal stage, with Scer\GAL4GMR.PF
eye
eye, with Scer\GAL4GMR.PF
eye disc | pupal stage
eye disc | pupal stage, with Scer\GAL4GMR.PF
germline cell | male, with Scer\GAL4ptc-559.1
interommatidial bristle, with Scer\GAL4GMR.PF
interommatidial bristle | increased number
medial row of triple row of wing sensilla
ommatidium
ommatidium | adult stage
ommatidium | adult stage, with Scer\GAL4GMR.PF
ommatidium | pupal stage
photoreceptor neuron | increased number
photoreceptor neuron | pupal stage, with Scer\GAL4GMR.PF
testis
wing | progressive, with Scer\GAL4elav.PU
wing blade, with Scer\GAL4Bx-MS1096
wing margin bristle, with Scer\GAL4Bx-MS1096
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (67)
Hsap\USP47
14 of 14
Yes
Yes
Hsap\USP7
3 of 14
No
No
2  
Hsap\USP18
3 of 14
No
Yes
Hsap\USP40
3 of 14
No
Yes
Hsap\USP48
3 of 14
No
Yes
Hsap\USP9X
2 of 14
No
No
Hsap\USP24
2 of 14
No
No
Hsap\USP25
2 of 14
No
Yes
Hsap\USP28
2 of 14
No
Yes
Hsap\USP34
2 of 14
No
No
Hsap\USP41
2 of 14
No
Yes
Hsap\USP2
1 of 14
No
No
Hsap\USP3
1 of 14
No
No
Hsap\USP5
1 of 14
No
No
Hsap\USP8
1 of 14
No
No
1  
Hsap\USP9Y
1 of 14
No
No
Hsap\USP10
1 of 14
No
No
Hsap\USP11
1 of 14
No
No
Hsap\USP12
1 of 14
No
No
Hsap\USP13
1 of 14
No
No
1  
Hsap\USP14
1 of 14
No
No
Hsap\USP15
1 of 14
No
No
Hsap\USP17L1
1 of 14
No
No
Hsap\USP17L2
1 of 14
No
No
Hsap\USP17L3
1 of 14
No
No
Hsap\USP17L4
1 of 14
No
No
Hsap\USP17L5
1 of 14
No
No
Hsap\USP17L6P
1 of 14
No
No
Hsap\USP17L7
1 of 14
No
No
Hsap\USP17L8
1 of 14
No
No
Hsap\USP17L10
1 of 14
No
No
Hsap\USP17L11
1 of 14
No
No
Hsap\USP17L12
1 of 14
No
No
Hsap\USP17L13
1 of 14
No
No
Hsap\USP17L15
1 of 14
No
No
Hsap\USP17L17
1 of 14
No
No
Hsap\USP17L18
1 of 14
No
No
Hsap\USP17L19
1 of 14
No
No
Hsap\USP17L20
1 of 14
No
No
Hsap\USP17L21
1 of 14
No
No
Hsap\USP17L22
1 of 14
No
No
Hsap\USP17L24
1 of 14
No
No
Hsap\USP17L25
1 of 14
No
No
Hsap\USP17L26
1 of 14
No
No
Hsap\USP17L27
1 of 14
No
No
Hsap\USP17L28
1 of 14
No
No
Hsap\USP17L29
1 of 14
No
No
Hsap\USP17L30
1 of 14
No
No
Hsap\USP20
1 of 14
No
No
Hsap\USP21
1 of 14
No
No
Hsap\USP22
1 of 14
No
No
Hsap\USP26
1 of 14
No
No
Hsap\USP27X
1 of 14
No
No
Hsap\USP29
1 of 14
No
No
Hsap\USP30
1 of 14
No
No
3  
Hsap\USP33
1 of 14
No
No
Hsap\USP35
1 of 14
No
No
Hsap\USP36
1 of 14
No
No
Hsap\USP38
1 of 14
No
No
Hsap\USP42
1 of 14
No
No
Hsap\USP43
1 of 14
No
No
Hsap\USP44
1 of 14
No
No
Hsap\USP45
1 of 14
No
No
Hsap\USP46
1 of 14
No
No
1  
Hsap\USP49
1 of 14
No
No
Hsap\USP50
1 of 14
No
No
Hsap\USP51
1 of 14
No
No
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (36)
Rnor\Usp47
14 of 14
Yes
Yes
Rnor\Usp40
4 of 14
No
Yes
Rnor\Usp7
3 of 14
No
No
Rnor\Usp18
3 of 14
No
Yes
Rnor\Usp48
3 of 14
No
Yes
Rnor\Usp9x
2 of 14
No
No
Rnor\Usp24
2 of 14
No
No
Rnor\Usp25
2 of 14
No
Yes
Rnor\Usp28
2 of 14
No
Yes
Rnor\LOC689730
1 of 14
No
No
Rnor\LOC100910107
1 of 14
No
No
Rnor\Usp2
1 of 14
No
No
Rnor\Usp3
1 of 14
No
No
Rnor\Usp5
1 of 14
No
No
Rnor\Usp8
1 of 14
No
No
Rnor\Usp9y
1 of 14
No
No
Rnor\Usp12
1 of 14
No
No
Rnor\Usp13
1 of 14
No
No
Rnor\Usp14
1 of 14
No
No
Rnor\Usp20
1 of 14
No
No
Rnor\Usp21
1 of 14
No
No
Rnor\Usp22
1 of 14
No
No
Rnor\Usp26
1 of 14
No
No
Rnor\Usp27x
1 of 14
No
No
Rnor\Usp29
1 of 14
No
No
Rnor\Usp30
1 of 14
No
No
Rnor\Usp33
1 of 14
No
No
Rnor\Usp34
1 of 14
No
No
Rnor\Usp35
1 of 14
No
No
Rnor\Usp36
1 of 14
No
No
Rnor\Usp38
1 of 14
No
No
Rnor\Usp45
1 of 14
No
No
Rnor\Usp46
1 of 14
No
No
Rnor\Usp49
1 of 14
No
No
Rnor\Usp50
1 of 14
No
No
Rnor\Usp51
1 of 14
No
No
Mus musculus (laboratory mouse) (41)
Mmus\Usp47
14 of 14
Yes
Yes
Mmus\Usp7
3 of 14
No
No
Mmus\Usp18
3 of 14
No
Yes
Mmus\Usp40
3 of 14
No
Yes
Mmus\Usp9x
2 of 14
No
No
4  
Mmus\Usp9y
2 of 14
No
No
Mmus\Usp24
2 of 14
No
No
Mmus\Usp25
2 of 14
No
Yes
Mmus\Usp28
2 of 14
No
Yes
Mmus\Usp48
2 of 14
No
Yes
Mmus\Usp2
1 of 14
No
No
Mmus\Usp3
1 of 14
No
No
Mmus\Usp5
1 of 14
No
No
Mmus\Usp8
1 of 14
No
No
Mmus\Usp12
1 of 14
No
No
Mmus\Usp13
1 of 14
No
No
Mmus\Usp14
1 of 14
No
No
Mmus\Usp16
1 of 14
No
No
Mmus\Usp17la
1 of 14
No
No
Mmus\Usp17lb
1 of 14
No
No
Mmus\Usp17lc
1 of 14
No
No
Mmus\Usp17ld
1 of 14
No
No
Mmus\Usp17le
1 of 14
No
No
Mmus\Usp20
1 of 14
No
No
Mmus\Usp21
1 of 14
No
No
Mmus\Usp22
1 of 14
No
No
Mmus\Usp26
1 of 14
No
No
Mmus\Usp27x
1 of 14
No
No
Mmus\Usp29
1 of 14
No
Yes
Mmus\Usp30
1 of 14
No
No
Mmus\Usp33
1 of 14
No
No
Mmus\Usp34
1 of 14
No
No
Mmus\Usp35
1 of 14
No
No
Mmus\Usp36
1 of 14
No
No
Mmus\Usp37
1 of 14
No
No
Mmus\Usp38
1 of 14
No
No
Mmus\Usp45
1 of 14
No
No
Mmus\Usp46
1 of 14
No
No
Mmus\Usp49
1 of 14
No
No
Mmus\Usp50
1 of 14
No
No
Mmus\Usp51
1 of 14
No
No
Xenopus tropicalis (Western clawed frog) (30)
Xtro\usp47
11 of 13
Yes
Yes
Xtro\usp40
2 of 13
No
Yes
Xtro\usp48
2 of 13
No
Yes
Xtro\acaca
1 of 13
No
No
Xtro\amacr
1 of 13
No
No
Xtro\btd
1 of 13
No
No
Xtro\LOC108644520
1 of 13
No
Yes
Xtro\LOC116410989
1 of 13
No
No
Xtro\sphk2
1 of 13
No
No
Xtro\usp5
1 of 13
No
No
Xtro\usp7
1 of 13
No
No
Xtro\usp12b
1 of 13
No
No
Xtro\usp12
1 of 13
No
No
Xtro\usp13
1 of 13
No
No
Xtro\usp14
1 of 13
No
No
Xtro\usp15
1 of 13
No
No
Xtro\usp16
1 of 13
No
No
Xtro\usp20
1 of 13
No
No
Xtro\usp21
1 of 13
No
No
Xtro\usp22
1 of 13
No
No
Xtro\usp24
1 of 13
No
No
Xtro\usp28
1 of 13
No
Yes
Xtro\usp30
1 of 13
No
No
Xtro\usp33
1 of 13
No
No
Xtro\usp38
1 of 13
No
No
Xtro\usp39
1 of 13
No
No
Xtro\usp44
1 of 13
No
Yes
Xtro\usp45
1 of 13
No
No
Xtro\usp49
1 of 13
No
No
Xtro\yrdc
1 of 13
No
No
Danio rerio (Zebrafish) (45)
Drer\usp47
12 of 14
Yes
Yes
Drer\usp40
4 of 14
No
Yes
Drer\usp7
3 of 14
No
No
Drer\usp18
2 of 14
No
Yes
Drer\usp24
2 of 14
No
No
Drer\usp48
2 of 14
No
Yes
Drer\LOC562362
1 of 14
No
Yes
Drer\LOC571124
1 of 14
No
Yes
Drer\LOC799889
1 of 14
No
Yes
Drer\LOC100005640
1 of 14
No
Yes
Drer\LOC100535040
1 of 14
No
Yes
Drer\si:ch211-212k18.13
1 of 14
No
Yes
Drer\si:ch211-254c8.3
1 of 14
No
Yes
Drer\si:dkey-88j15.3
1 of 14
No
Yes
Drer\usp1
1 of 14
No
No
Drer\usp2a
1 of 14
No
No
Drer\usp2b
1 of 14
No
No
Drer\usp3
1 of 14
No
No
Drer\usp5
1 of 14
No
No
Drer\usp8
1 of 14
No
No
Drer\usp9
1 of 14
No
No
Drer\usp12a
1 of 14
No
No
Drer\usp12b
1 of 14
No
No
Drer\usp13
1 of 14
No
No
Drer\usp14
1 of 14
No
No
Drer\usp20
1 of 14
No
No
Drer\usp21
1 of 14
No
No
Drer\usp22
1 of 14
No
No
Drer\usp25
1 of 14
No
Yes
Drer\usp28
1 of 14
No
Yes
Drer\usp30
1 of 14
No
No
Drer\usp33
1 of 14
No
No
Drer\usp34
1 of 14
No
No
Drer\usp36
1 of 14
No
No
Drer\usp37
1 of 14
No
Yes
Drer\usp38
1 of 14
No
No
Drer\usp42
1 of 14
No
No
Drer\usp44
1 of 14
No
No
Drer\usp46
1 of 14
No
No
Drer\usp49
1 of 14
No
No
Drer\zgc:92184
1 of 14
No
Yes
Drer\zgc:113625
1 of 14
No
Yes
Drer\zgc:152658
1 of 14
No
Yes
Drer\zgc:153642
1 of 14
No
Yes
Drer\zgc:194443
1 of 14
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (18)
Cele\T05H10.1
12 of 14
Yes
Yes
Cele\usp-48
3 of 14
No
Yes
Cele\math-33
2 of 14
No
No
Cele\C04E6.5
1 of 14
No
No
Cele\cyk-3
1 of 14
No
No
Cele\duo-3
1 of 14
No
No
Cele\H12I13.1
1 of 14
No
No
Cele\H34C03.2
1 of 14
No
No
Cele\K02C4.3
1 of 14
No
Yes
Cele\K08B4.5
1 of 14
No
Yes
Cele\T24B8.7
1 of 14
No
No
Cele\usp-3
1 of 14
No
No
Cele\usp-5
1 of 14
No
No
Cele\usp-14
1 of 14
No
No
Cele\usp-33
1 of 14
No
No
Cele\usp-39
1 of 14
No
No
Cele\usp-46
1 of 14
No
No
Cele\Y67D2.2
1 of 14
No
No
Anopheles gambiae (African malaria mosquito) (18)
Agam\AgaP_AGAP007106
12 of 12
Yes
Yes
Agam\AgaP_AGAP008530
3 of 12
No
No
Agam\AgaP_AGAP003643
2 of 12
No
No
Agam\AgaP_AGAP010088
2 of 12
No
No
Agam\AgaP_AGAP000269
1 of 12
No
No
Agam\AgaP_AGAP001052
1 of 12
No
No
Agam\AgaP_AGAP002900
1 of 12
No
No
Agam\AgaP_AGAP003821
1 of 12
No
No
Agam\AgaP_AGAP006652
1 of 12
No
No
Agam\AgaP_AGAP007521
1 of 12
No
No
Agam\AgaP_AGAP007600
1 of 12
No
No
Agam\AgaP_AGAP008381
1 of 12
No
No
Agam\AgaP_AGAP008805
1 of 12
No
No
Agam\AgaP_AGAP009348
1 of 12
No
No
Agam\AgaP_AGAP010080
1 of 12
No
No
Agam\AgaP_AGAP012119
1 of 12
No
No
Agam\AgaP_AGAP012139
1 of 12
No
No
Agam\AgaP_AGAP012248
1 of 12
No
No
Arabidopsis thaliana (thale-cress) (31)
Atha\UBP12
3 of 13
Yes
No
Atha\UBP13
3 of 13
Yes
No
Atha\UBP26
2 of 13
No
No
Atha\AT2G25330
1 of 13
No
No
Atha\AT4G22285
1 of 13
No
No
Atha\AT4G22350
1 of 13
No
No
Atha\AT4G22410
1 of 13
No
No
Atha\UBP1
1 of 13
No
No
Atha\UBP2
1 of 13
No
No
Atha\UBP3
1 of 13
No
No
Atha\UBP4
1 of 13
No
No
Atha\UBP5
1 of 13
No
No
Atha\UBP6
1 of 13
No
No
Atha\UBP7
1 of 13
No
No
Atha\UBP8
1 of 13
No
No
Atha\UBP9
1 of 13
No
No
Atha\UBP10
1 of 13
No
No
Atha\UBP11
1 of 13
No
No
Atha\UBP14
1 of 13
No
No
Atha\UBP15
1 of 13
No
No
Atha\UBP16
1 of 13
No
No
Atha\UBP17
1 of 13
No
No
Atha\UBP18
1 of 13
No
No
Atha\UBP19
1 of 13
No
No
Atha\UBP20
1 of 13
No
No
Atha\UBP21
1 of 13
No
No
Atha\UBP22
1 of 13
No
No
Atha\UBP23
1 of 13
No
No
Atha\UBP24
1 of 13
No
No
Atha\UBP25
1 of 13
No
No
Atha\UBP27
1 of 13
No
No
Saccharomyces cerevisiae (Brewer's yeast) (15)
Scer\UBP2
2 of 13
Yes
Yes
3  
Scer\UBP15
2 of 13
Yes
No
Scer\DOA4
1 of 13
No
No
1  
Scer\UBP1
1 of 13
No
No
Scer\UBP3
1 of 13
No
No
Scer\UBP5
1 of 13
No
No
Scer\UBP6
1 of 13
No
No
Scer\UBP7
1 of 13
No
No
Scer\UBP8
1 of 13
No
No
Scer\UBP9
1 of 13
No
No
Scer\UBP11
1 of 13
No
No
Scer\UBP12
1 of 13
No
No
Scer\UBP13
1 of 13
No
No
Scer\UBP14
1 of 13
No
No
Scer\UBP16
1 of 13
No
Yes
Schizosaccharomyces pombe (Fission yeast) (8)
Spom\ubp5
2 of 12
Yes
No
Spom\ubp15
2 of 12
Yes
No
Spom\ubp2
1 of 12
No
Yes
Spom\ubp4
1 of 12
No
No
Spom\ubp6
1 of 12
No
No
Spom\ubp8
1 of 12
No
No
Spom\ubp14
1 of 12
No
No
Spom\ubp16
1 of 12
No
No
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:Usp47. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Gene Symbol
Score
Source
Compara
Domainoid
eggNOG
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Drosophila melanogaster (Fruit fly) (19)
Usp7
5 of 13
faf
4 of 13
DUBAI
3 of 13
puf
3 of 13
scny
3 of 13
Usp5
3 of 13
Usp30
3 of 13
not
2 of 13
Usp1
2 of 13
Usp2
2 of 13
Usp8
2 of 13
Usp12-46
2 of 13
Usp14
2 of 13
Usp15-31
2 of 13
Usp16-45
2 of 13
Usp10
1 of 13
Usp20-33
1 of 13
Usp32
1 of 13
Usp39
1 of 13
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 1 )
    Modifiers Based on Experimental Evidence ( 3 )
    Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    USP47; ubiquitin specific peptidase 47
    14 of 14
    614460
        USP7; ubiquitin specific peptidase 7
        3 of 14
        602519
           
          USP18; ubiquitin specific peptidase 18
          3 of 14
          607057
            USP40; ubiquitin specific peptidase 40
            3 of 14
            610570
                USP48; ubiquitin specific peptidase 48
                3 of 14
                617445
                Functional Complementation Data
                Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
                Interactions
                Summary of Physical Interactions
                Summary of Genetic Interactions
                Interaction Browsers
                View in FlyBase Interactions Browser   View in MIST tool (external link)
                Please look at the allele data for full details of the genetic interactions
                Starting gene(s)
                Interaction type
                Interacting gene(s)
                Reference
                Usp47|rl
                enhanceable
                poe
                (Ashton-Beaucage et al., 2016)
                Usp47
                suppressible
                Su(var)2-1
                (Henchoz et al., 1996)
                Usp47
                enhanceable
                ttk
                (Bajpe et al., 2008)
                Starting gene(s)
                Interaction type
                Interacting gene(s)
                Reference
                bw
                enhanceable
                Usp47
                (Schneiderman et al., 2010)
                csw
                enhanceable
                Usp47
                (Ashton-Beaucage et al., 2016)
                Dcp-1
                suppressible
                Usp47
                (Kim et al., 2010)
                rl
                enhanceable
                Usp47
                (Ashton-Beaucage et al., 2016)
                rl
                suppressible
                Usp47
                (Ashton-Beaucage et al., 2016)
                slbo
                suppressible
                Usp47
                (Rorth et al., 2000)
                ttk
                enhanceable
                Usp47
                (Bajpe et al., 2008)
                ttk
                suppressible
                Usp47
                (Bajpe et al., 2008)
                External Data
                Subunit Structure (UniProtKB)
                Interacts with ttk.
                (UniProt, Q24574 )
                Linkouts
                BioGRID - A database of protein and genetic interactions.
                DroID - A comprehensive database of gene and protein interactions.
                MIST (genetic) - An integrated Molecular Interaction Database
                MIST (protein-protein) - An integrated Molecular Interaction Database
                Pathways
                Class of Gene
                Genomic Location and Detailed Mapping Data
                Chromosome (arm)
                3L
                Recombination map
                3-15
                Cytogenetic map
                64E5-64E6
                Sequence location
                FlyBase Computed Cytological Location
                Cytogenetic map
                Evidence for location
                64E5-64E6
                Limits computationally determined from genome sequence between P{PZ}sinu06524 and P{PZ}Bre101640
                Experimentally Determined Cytological Location
                Cytogenetic map
                Notes
                References
                64E-64E
                (Spierer, 1996.7.9)
                64E-64E
                (determined by in situ hybridisation)
                (Henchoz et al., 1996)
                Experimentally Determined Recombination Data
                Location

                3-15

                (FlyBase, 2016)

                3-13.8

                (Comeron et al., 2012)

                3-

                (Spierer, 1996.7.9)

                2-

                (Dorn et al., 1993)
                Left of (cM)
                Right of (cM)
                Notes
                Stocks and Reagents
                Stocks (9)
                Genomic Clones (23)
                cDNA Clones (175)
                 

                Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

                cDNA clones, fully sequenced
                BDGP DGC clones
                Other clones
                  Drosophila Genomics Resource Center cDNA clones

                  For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

                  cDNA Clones, End Sequenced (ESTs)
                  BDGP DGC clones
                  Other clones
                  RNAi and Array Information
                  Linkouts
                  DRSC - Results frm RNAi screens
                  Antibody Information
                  Laboratory Generated Antibodies
                   

                  polyclonal

                  (Bajpe et al., 2008)
                  Commercially Available Antibodies
                   
                  Cell Line Information
                  Publicly Available Cell Lines
                   
                    Other Stable Cell Lines
                     
                      Other Comments

                      Area matching Drosophila EST AA440949 (inverted).

                      (Davies, 2001.3.15)

                      Previously localised to the second chromosome using of aneuploid segregants of T(2;3)apXa but is relocalised on the third chromosome by in situ hybridisation.

                      (Henchoz et al., 1996)

                      Reduced dose of Ubp64E acts as a general enhancer of position effect variegation (PEV). Ubp64E is not a regulator of homeotic genes.

                      (Henchoz et al., 1996)
                      Relationship to Other Genes
                      Source for database merge of

                      Source for merge of: Ubp64E BcDNA:LD12764

                      (FlyBase, 1996-)
                      Additional comments

                      Source for merge of Ubp64E BcDNA:LD12764 was a shared cDNA ( date:030728 ).

                      (FlyBase, 1996-)
                      Nomenclature History
                      Source for database identify of

                      Source for identity of: Ubp64E CG5486

                      (Gabrielian, 1999.11)

                      Source for identity of: Usp47 Ubp64E

                      (FlyBase, 2009-)
                      Nomenclature comments

                      Changed symbol from 'Ubp64E' to 'Usp47' to make it consistent with all other 'Usp' genes in D. melanogaster named for their molecular function/orthology (that have a 'Usp' prefix and reflect the HGNC nomenclature of their human orthologs), and to avoid referring to D. melanogaster-specific cytological location. (Orthology call to human USP47 is consistent with the OrthoDB orthology shown in FlyBase, and that given in FBrf0219256 and FBrf0225968.)

                      (FlyBase, 2009-)
                      Etymology
                      Synonyms and Secondary IDs (23)
                      Reported As
                      Symbol Synonym
                      BcDNA:LD12764
                      CG5486
                      (Pai et al., 2023, Páhi et al., 2022, Hosono et al., 2015, Zhou et al., 2015, Engel et al., 2014, Molnar et al., 2012, Tsou et al., 2012, Zhang et al., 2012, Ni et al., 2010.12.1, Schneiderman et al., 2010, Vidal et al., 2010, Keleman et al., 2009.8.5, Molnar et al., 2006)
                      D-UBP-64E
                      (Chung and Baek, 1999, Henchoz et al., 1996)
                      D-Ubp-64E
                      (Spierer, 1996.7.9)
                      E(var)1
                      E(var)3-64E
                      (Engel et al., 2014, Elgin and Reuter, 2013, Wallrath, 1998, Pirrotta, 1997)
                      E-var(3)64E
                      (Henchoz et al., 1995)
                      Q24574
                      (Clague et al., 2013)
                      UBP
                      (Chung and Baek, 1999)
                      UBP64E
                      (Shi et al., 2015)
                      USP47
                      (Xie et al., 2021)
                      Ubp64
                      (Tsou et al., 2012, Yokoyama and Nakamura, 2011, Bajpe et al., 2008, Rorth et al., 2000)
                      Ubp64E
                      (Badmos et al., 2021, Kang et al., 2016, Gnerer et al., 2015, Ashwal-Fluss et al., 2014, Engel et al., 2014, Simões-Correia et al., 2014, Terriente-Felix et al., 2013, Yagi et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Tsou et al., 2012, Zhang et al., 2012, Cernilogar et al., 2011, Kim et al., 2010, Schneiderman et al., 2010, Vidal et al., 2010, Bilen and Bonini, 2007, Chintapalli et al., 2007, Martin et al., 2007, Molnar et al., 2006)
                      Upd64E
                      (Gnerer et al., 2015)
                      Usp47
                      (Zhao et al., 2024, Kassel et al., 2023, Páhi et al., 2022, Ribot et al., 2022, Feuillette et al., 2020, Wei et al., 2020, Alexopoulou et al., 2016, Ashton-Beaucage et al., 2016, Zhou et al., 2015, Schneiderman et al., 2010)
                      dUBP64
                      (Velentzas et al., 2020)
                      dUSP47
                      (Bingol et al., 2014)
                      dUbp64
                      (Bajpe et al., 2008)
                      ubp64
                      (Bajpe et al., 2008)
                      ubp64E
                      (Kim et al., 2010)
                      usp47
                      (Du et al., 2020, Ristic et al., 2016)
                      Name Synonyms
                      Ubiquitin specific protease 47
                      Ubiquitin-specific protease 64E
                      Secondary FlyBase IDs
                      • FBgn0013225
                      • FBgn0047212
                      Datasets (0)
                      Study focus (0)
                      Experimental Role
                      Project
                      Project Type
                      Title
                      Study result (0)
                      Result
                      Result Type
                      Title
                      External Crossreferences and Linkouts ( 64 )
                      Sequence Crossreferences
                      NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
                      GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
                      GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
                      RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
                      UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
                      UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
                      UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
                      Other crossreferences
                      AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
                      BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
                      DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
                      EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
                      FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
                      FlyMine - An integrated database for Drosophila genomics
                      InterPro - A database of protein families, domains and functional sites
                      KEGG Genes - Molecular building blocks of life in the genomic space.
                      MARRVEL_MODEL - MARRVEL (model organism gene)
                      MEROPS - An information resource for peptidases (also termed proteases, proteinases and proteolytic enzymes) and the proteins that inhibit them.
                      Linkouts
                      BioGRID - A database of protein and genetic interactions.
                      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
                      DroID - A comprehensive database of gene and protein interactions.
                      DRSC - Results frm RNAi screens
                      Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
                      FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
                      FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                      Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
                      Flygut - An atlas of the Drosophila adult midgut
                      iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
                      MIST (genetic) - An integrated Molecular Interaction Database
                      MIST (protein-protein) - An integrated Molecular Interaction Database
                      References (99)