Gene detail

Detailed information of ENSSYXP00000014427.1 in Micromussa lordhowensis

Genomic Location: chr4:1387850...1404237
NR annotation: XP_022793516.1, ubiquitin carboxyl-terminal hydrolase 48-like [Stylophora pistillata]
Species Micromussa lordhowensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSSYXT00000015262

atggcgcgtCGAACAACAAATCGGAAACAGCAGGGAAATGTACTAAAGCAAGCCTGGGAATGGGCTGATCACACGGAACCTGATAATATCACAAGAGAAAATGTCGAGAGCGCCTACCGGGTAAATACGACTGGTTGTTCCCAGGGAAATTGCAGGAGGAATTGTAAAGCCAATCCAAACTGTTTCAATTGCCTTGGAGAAAGATTTTGGCTTGGTGAAATAAAAGATGATTACTGGCTGAATTGTGAGGATCCAGAAAATGAAAGAAGACCTGAGAATGCTTTTGTTGGTCTTAAGAACCTTGGTGCTACATGCTATGTGAACACATTTCTACAGGTCTGGTTTCATAATCCCGTCTTTCGCTCAGCTATGTACAAATATATCTCTCCTTTAATTCCAAAACAAGAAGATAACAAATCTGTGAATGGTTTGTCAGCATCACAGAGTGTTACAAACACGAAAGACTCTCCTAAGCTGAACAACCACAAAAGTGAGGATAGTAAAGCGTCAGATAAACCTTCTTCTGTTGCTGTAACACCTGATCAAGCATCAAACAACCAACTGGTTCCATTACTTCCTTCTACCACAGTGCTGAGCTCAGAGGAAGCACCAACGACAGTCTGTGGTCATCTTCAGCTGTTGTTTGCTCAGTTGCAGTACAGTTTTCGAAGATACATTGATCCCAGCCCGTTTGTCGACAGTTTAGGACTAGATACTGCACAGCAGCAGGATGCACAGGAGTTTAGCAAACTTTTTACATCTTTACTTGAAGAAACTTTCTCGAAACAGGCTGAGCCGGAGGTGCAGAATGTTGTTCAGACTCAGTTTGGTGGAGAGTACTTTTATGTCACAGAATGTCACAGCTGTGGAAACAAATCAAAGAGACTATCTCGCTTTTATGAACTGGATCTGAACATACAAGGACACTCCTCACTCAACCAGTGCATCAAAGAGTTTCTAAAGGAAGAGAAGTTAGATGGTGATAATCAGTATTACTGCACACATTGTAACAGTAAGCAGAACGCTGCTCGTTACATTGAACTACACTCTCTGCCTCCAGTTCTCAATCTGCAGCTGTTACGATTTGTGTTTGACAGGAAAACAGGCTACAAGAAAAAATTGAACTCATTCATTCAGTTTCCTGATACCCTTGATATGAAGGACCATGTGAAAAATGGATGCATTGGATCCGACTCAGTTTACGAGTTGAGTGCAGTGTTGATCCACTTTGGAGTGAGTGCTTATTCAGGACATTATGTGGCTCACATCAGAGATAAAAAGTCAGGTTCATGGTACAAGTTCAATGATGAAGACATTGTCAAGATGCAGGGAAAGTTAAAACTGTCACAAGATGAAGACTCTGCAGATACCACCATCAAGCCAGCTAAAAGACCTAAATGTGCAAAAGGTTACCATGTGTCAAAGAATGCATACACATTGGTGTACACTCTCCAAGGGCATAAGGGTGTTGGTAAGGGTGAAAAGTTGGTCtccaaaggaaaggaaaggcaAGCTGAAATAAGAAAACTATATCAGGACATGCCAATAACTTCAGAAGCACAATATGAATGGATATCTACAAAATGGCTGAAAGATTGGATGAATGAGAAAACTGAGACACCACCAGTGGACAATTCATCTCTCCTCTGTTCTCATGGAAAACTCAATCCAAATCAAGTTCTTAATGCCAAACGAATCAACATCAAAGCTGCAGATGAAATATTCAGACAATACGGTGGACTGCCAAGACTTCAGAGTGACTCAATGTGTGTTAACTGTGTCAAAGAACAATGCAGAAGAATGCGATTCGAATCCAGACTGGCTGAAGATTACAAGTTTGTGTCCGATGCTTTGAAGTCTCAAACATCACACAGTGACAAGCTCTTTTGGGTTGGTCGGCGGTCACTTCTTAGATGGAAAGCTTTAGCAATTCACCATGAAGAGGCGCGCCAGAGTTTGATGGACAGATGCCAAGTTCCAGCCAATCACGATGCAGAGGAAGATGAGGAGGCCAAGGTCAAGGGAATTGAAGATCATGATGTTAGCATGACAGAAGAAGAGAAGACACCTCAGCAGATGGACGAGAATCCACAGGAGACTGGTGCTGAGGAGGACGAAGTTGATAGTGATTCTAAGTTCAATGAAGACTTACTTTGTGAACACGGAGATCTTTCTTCGGACGAGTCATGTCGGAGGCTTGTACCAGATGTTGTGTGGCAGAGGTTAAAGTACTACTTCCCTTGCGCTCCCGAGTTTTCAGCTGCTCACGCAGTGTGTAGGTTGTGCCAGGcagaagacgaagaagaacgACAGAAAAGTGAGACGTACAAATTGCTCGCATCAGAACAGAGAGCTGCTGTTAGTCAACTATATCTCGAGAGGAATCGGCCGTCATTCGATAACGACGATCCATTCGTTGCCTGTGccgtttcaaaatattttcttgatCAGTGGAGGCAATTCTTAAGGTATCCCGCAAGGAATGTCCCACCCAACAGTATCGTCAATGCCCCTCTGCTGTGTCCCCATGAAAAGTTCCTCTTCAATCCCGAGTGTGATGAAGACATGGATGGTGCGAACGAAGAGTTATGTTATGTCTGGCAACACGAATGGAACACACTTACCCAAACCTACCCTTACGATCACGTGATCATGGTTACTAAAAGTGTAACAGAAGACGACGTGAGAGAACTGGTTACTAGCCCAGACGTGTGCACAGAATGCTGCTATGCGCGGATACAGGAGCGAGTACAACACGTGGAGAATTATCGTCATGGTACAATCTACGTGCGCAAAATAACAAAGGATCATAGCGAGAAGGATATACAACAAGTCTTGAATGATagTGCCTCGAGCATTGACGGCTATTCGTTCGATCCAGATTTCCAGACACCACCGGACAATAAGAAACCAAAGCTGAACCGTGATAGTGGAGCCCGTCGAAGCTCCAGGCATCGTAAACAGCGCGGAGAAGTCTCACTGACTGTTGGATCAACCGAAACTTTACGAGATGTCAAACTACAGCTGATGAAGAGTTTTTCTGTGATGCCCATGGATCAACATCTCACGTTAAATGGCGTGCCTCTCTCAAACAATAATGCAACGCTTATAACTTTGGGAATCAAGCCAGGATCTTTATTACTATTACAGGTTTGTCGTAAGCTAAATAGCAGAGAAACACTCCTTCTCTGGGGACCAATGCCTTTTGATGTACCGAGCAGAATGGCAACTTGTTGTCAGAGCTGGCACTACAAAACGTTTGGCAGGAAGTGGGGAGAATTCATCTTGATTAAAATCACGGGTTCAGTTGCTCTAGGTTGA

Transcript

ENSSYXT00000015262

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q86UV5	Ubiquitin carboxyl-terminal hydrolase 48 OS=Homo sapiens OX=9606 GN=USP48 PE=1 SV=1
A0A0R4IB93	Ubiquitin carboxyl-terminal hydrolase 48 OS=Danio rerio OX=7955 GN=usp48 PE=3 SV=1
Q5ZM45	Ubiquitin carboxyl-terminal hydrolase 48 OS=Gallus gallus OX=9031 GN=USP48 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003475 (this species only) · gene tree & orthology
Ubiquitin family	ULD\|UFD/UBQ\|UBQ_Other · all ubiquitin genes in this species
Ubiquitin family	DUB\|USP\|USP · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00443 all species →	UCH	Ubiquitin carboxyl-terminal hydrolase	Family	Interproscan
PF06337 all species →	DUSP	DUSP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033841 all species →	Domain	Ubiquitin-specific peptidase 48	Interproscan
IPR006615 all species →	Domain	Peptidase C19, ubiquitin-specific peptidase, DUSP domain	Interproscan
IPR035927 all species →	Homologous_superfamily	DUSP-like superfamily	Interproscan
IPR000626 all species →	Domain	Ubiquitin-like domain	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR050164 all species →	Family	Ubiquitin carboxyl-terminal hydrolases	Interproscan
IPR001394 all species →	Domain	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Interproscan
IPR018200 all species →	Conserved_site	Ubiquitin specific protease, conserved site	Interproscan
IPR044743 all species →	Domain	Ubiquitin-specific-processing protease 48, Ubl domain	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR028889 all species →	Domain	Ubiquitin specific protease domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24006 all species →	UBIQUITIN CARBOXYL-TERMINAL HYDROLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004843 all species →	Molecular Function	cysteine-type deubiquitinase activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016579 all species →	Biological Process	protein deubiquitination	Interproscan
GO:0004197 all species →	Molecular Function	cysteine-type endopeptidase activity	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K11858	USP48; ubiquitin carboxyl-terminal hydrolase 48	EC:3.4.19.12	Ubiquitin system	ko04121	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Micromussa lordhowensis tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Micromussa lordhowensis, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →