Gene detail

Detailed information of OS493_033058-T1 in Lophelia pertusa

Genomic Location: scaffold_254:497898...503841
NR annotation: KAJ7382772.1, COP9 signalosome complex subunit 8 [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
Q6GQA6	COP9 signalosome complex subunit 8 OS=Xenopus laevis OX=8355 GN=csn8 PE=2 SV=2
Q7ZUZ0	COP9 signalosome complex subunit 8 OS=Danio rerio OX=7955 GN=cops8 PE=2 SV=1
Q6P637	COP9 signalosome complex subunit 8 OS=Xenopus tropicalis OX=8364 GN=csn8 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007364 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10075 all species →	CSN8_PSD8_EIF3K	CSN8/PSMD8/EIF3K family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033464 all species →	Domain	CSN8/PSMD8/EIF3K	Interproscan
IPR033205 all species →	Family	COP9 signalosome, subunit CSN8	Interproscan
IPR000717 all species →	Domain	Proteasome component (PCI) domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13339 all species →	COP9 SIGNALOSOME COMPLEX SUBUNIT 8	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000338 all species →	Biological Process	protein deneddylation	Interproscan
GO:0008180 all species →	Cellular Component	COP9 signalosome	Interproscan
GO:0010387 all species →	Biological Process	COP9 signalosome assembly	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
K12181	COPS8, CSN8; COP9 signalosome complex subunit 8	-	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_033058-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

109TPM > 0

7Conditions

65.5Max TPM

22.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.22	36.42
polyp at pH7 6	18	18	23.38	35.17
coral polyp · control treatment	16	16	24.70	55.84
coral polyp · oil and dispersant treatment	16	16	23.76	59.43
coral polyp · oil treatment	16	16	22.44	29.90
coral polyp · dispersant treatment	16	16	14.32	24.25
Polyp	10	9	29.09	65.50

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.42
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.10
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.89
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.64
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.55
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.52
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.95
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.88
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.09
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.81
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.51
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.91
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.57
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.41
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.95
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.42
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.60
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.96
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.84
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.91
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.84
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.05
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.03
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.89
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.80
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.82
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.72
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.34
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.59
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.64
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.85
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.09
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.64
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.92
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.95
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.67
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.10
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.82
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.11
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.12
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.25
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.66
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.93
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.31
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.88
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.77
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.64
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.25
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.52
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.69
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.06
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.11
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.87
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.53
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.46
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	65.50
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	48.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	34.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	30.91
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	28.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.08
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	24.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.48
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.