Gene detail

Detailed information of OS493_040566-T1 in Lophelia pertusa

Genomic Location: scaffold_2527:3072...4847
NR annotation: KAJ7387990.1, hypothetical protein OS493_040566 [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
Q80TQ2	Ubiquitin carboxyl-terminal hydrolase CYLD OS=Mus musculus OX=10090 GN=Cyld PE=1 SV=2
Q66H62	Ubiquitin carboxyl-terminal hydrolase CYLD OS=Rattus norvegicus OX=10116 GN=Cyld PE=1 SV=1
Q9NQC7	Ubiquitin carboxyl-terminal hydrolase CYLD OS=Homo sapiens OX=9606 GN=CYLD PE=1 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_040566-T1 in Lophelia pertusa.

InterPro

No InterPro signature was recorded for OS493_040566-T1 in Lophelia pertusa.

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_040566-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_040566-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

92TPM > 0

7Conditions

8.3Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	3.71	8.03
polyp at pH7 6	18	16	4.66	8.31
coral polyp · control treatment	16	13	1.34	4.88
coral polyp · oil and dispersant treatment	16	14	1.47	6.83
coral polyp · oil treatment	16	14	1.29	4.23
coral polyp · dispersant treatment	16	16	2.02	6.17
Polyp	10	6	0.76	3.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.03
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.82
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.73
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.04
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.94
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.86
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.81
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.61
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.98
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.68
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.76
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.54
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.88
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.87
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.21
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.26
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.69
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.69
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.61
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.83
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.03
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.64
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.73
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.21
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.71
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.45
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.33
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.31
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.88
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.41
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.65
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.18
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.60
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.65
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.42
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	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.