Gene detail

Detailed information of OS493_030103-T1 in Lophelia pertusa

Genomic Location: scaffold_189:542414...550049
NR annotation: KAJ7377291.1, Ubiquitin carboxyl-terminal hydrolase 14 [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
Q9JMA1	Ubiquitin carboxyl-terminal hydrolase 14 OS=Mus musculus OX=10090 GN=Usp14 PE=1 SV=3
Q0IIF7	Ubiquitin carboxyl-terminal hydrolase 14 OS=Bos taurus OX=9913 GN=USP14 PE=2 SV=3
P60051	Ubiquitin carboxyl-terminal hydrolase 14 OS=Pan troglodytes OX=9598 GN=USP14 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004868 (this species only) · gene tree & orthology
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

InterPro

InterPro term	Type	Description	Source
IPR018200 all species →	Conserved_site	Ubiquitin specific protease, conserved site	Interproscan
IPR001394 all species →	Domain	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR028889 all species →	Domain	Ubiquitin specific protease domain	Interproscan
IPR044635 all species →	Family	Ubiquitin carboxyl-terminal hydrolase 14-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43982 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:0016579 all species →	Biological Process	protein deubiquitination	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic process	Interproscan
GO:0061136 all species →	Biological Process	regulation of proteasomal protein catabolic process	Interproscan
GO:0070628 all species →	Molecular Function	proteasome binding	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
K11843	USP14, UBP6; ubiquitin carboxyl-terminal hydrolase 14	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.

Expression pattern (RNA-seq)

Transcript abundance of OS493_030103-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

105.8Max TPM

39.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.81	47.72
polyp at pH7 6	18	18	36.98	72.22
coral polyp · control treatment	16	16	40.39	63.10
coral polyp · oil and dispersant treatment	16	16	56.58	105.84
coral polyp · oil treatment	16	16	38.26	61.32
coral polyp · dispersant treatment	16	16	26.37	49.23
Polyp	10	10	48.77	88.65

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.72
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.36
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.81
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.14
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.13
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.92
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.40
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.38
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.33
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.53
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.41
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.22
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.26
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.68
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.81
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.39
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.65
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.28
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.95
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.55
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.10
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.45
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.61
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.83
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.84
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.69
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.49
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.33
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.56
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.25
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.63
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.42
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.92
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.68
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.37
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.68
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.76
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.35
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.86
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.25
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.23
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.32
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.60
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.99
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.36
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.68
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.49
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.07
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.87
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.32
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.28
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.23
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.84
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.28
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.91
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.45
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.72
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.63
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.51
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.63
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.57
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	88.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	72.54
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	59.98
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	59.81
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	57.61
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	40.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	36.32
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	35.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.64
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.07

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.