Gene detail

Detailed information of OS493_022212-T1 in Lophelia pertusa

Genomic Location: scaffold_90:389898...401054
NR annotation: KAJ7330597.1, Ubiquitin carboxyl-terminal hydrolase 24 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9UPU5	Ubiquitin carboxyl-terminal hydrolase 24 OS=Homo sapiens OX=9606 GN=USP24 PE=1 SV=3
B1AY13	Ubiquitin carboxyl-terminal hydrolase 24 OS=Mus musculus OX=10090 GN=Usp24 PE=1 SV=1
P70398	Ubiquitin carboxyl-terminal hydrolase 9X OS=Mus musculus OX=10090 GN=Usp9x PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002549 (this species only)
Ubiquitin family	DUB\|USP\|USP · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12030 all species →	DUF3517	Domain of unknown function (DUF3517)	Family	Interproscan
PF00443 all species →	UCH	Ubiquitin carboxyl-terminal hydrolase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR021905 all species →	Domain	Ubiquitin C-terminal hydrolase-like, DUF3517	Interproscan
IPR050164 all species →	Family	Ubiquitin carboxyl-terminal hydrolases	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR018200 all species →	Conserved_site	Ubiquitin specific protease, conserved site	Interproscan
IPR028889 all species →	Domain	Ubiquitin specific protease domain	Interproscan
IPR001394 all species →	Domain	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	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:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016477 all species →	Biological Process	cell migration	Interproscan
GO:0016579 all species →	Biological Process	protein deubiquitination	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

No KEGG orthology assignment for OS493_022212-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_022212-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

51.4Max TPM

26.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	26.08	35.52
polyp at pH7 6	18	18	23.94	33.37
coral polyp · control treatment	16	16	34.60	51.40
coral polyp · oil and dispersant treatment	16	16	25.49	35.13
coral polyp · oil treatment	16	16	31.02	42.39
coral polyp · dispersant treatment	16	16	20.28	36.01
Polyp	10	10	20.94	37.00

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.52
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.33
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.97
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.68
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.78
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.19
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.74
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.46
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.89
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.76
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.04
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.57
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.76
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.62
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.80
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.68
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.19
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.88
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.69
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.54
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.22
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.13
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.52
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.99
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.85
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.23
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.09
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.47
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.29
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.94
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.35
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.59
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.13
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.94
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.25
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.10
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.90
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.61
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.96
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.77
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.25
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.52
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.39
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.31
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.22
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.01
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.91
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.44
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.15
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.85
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.01
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.13
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.80
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.01
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.21
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.70
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.11
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.03
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	37.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	33.68
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	33.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.19
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	22.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.20
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.85
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.44

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.