Gene detail

Detailed information of OS493_039326-T1 in Lophelia pertusa

Genomic Location: scaffold_1074:1069...1943
NR annotation: KAJ7314515.1, hypothetical protein OS493_039326 [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
Q1RMU2	Ubiquitin carboxyl-terminal hydrolase CYLD OS=Bos taurus OX=9913 GN=CYLD PE=2 SV=1
Q9NQC7	Ubiquitin carboxyl-terminal hydrolase CYLD OS=Homo sapiens OX=9606 GN=CYLD PE=1 SV=1
Q5RED8	Ubiquitin carboxyl-terminal hydrolase CYLD OS=Pongo abelii OX=9601 GN=CYLD PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001326 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_039326-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR028889 all species →	Domain	Ubiquitin specific protease domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11830 all species →	40S RIBOSOMAL PROTEIN S3A	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004843 all species →	Molecular Function	cysteine-type deubiquitinase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0061578 all species →	Molecular Function	K63-linked deubiquitinase activity	Interproscan
GO:0070536 all species →	Biological Process	protein K63-linked 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_039326-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_039326-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

103TPM > 0

7Conditions

28.0Max TPM

8.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	9.31	21.00
polyp at pH7 6	18	18	8.60	18.17
coral polyp · control treatment	16	16	7.06	13.16
coral polyp · oil and dispersant treatment	16	16	9.36	19.26
coral polyp · oil treatment	16	16	6.50	10.94
coral polyp · dispersant treatment	16	16	13.81	28.03
Polyp	10	5	1.32	5.02

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.75
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.29
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.03
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.78
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.90
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.78
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.30
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.88
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.17
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.27
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.85
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.75
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.81
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.66
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.98
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.67
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.16
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.94
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.81
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.86
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.96
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.87
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.65
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.73
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.19
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.43
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.92
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.66
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.50
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.94
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.43
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.80
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.69
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.68
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.99
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.97
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.84
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.38
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.24
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.81
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.34
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.72
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.04
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.76
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.29
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.73
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.50
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.