Gene detail

Detailed information of OS493_006365-T1 in Lophelia pertusa

Genomic Location: scaffold_13:2578696...2580834
NR annotation: KAJ7393393.1, DDB1- and CUL4-associated factor 10 [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
Q6NWH1	DDB1- and CUL4-associated factor 10 OS=Danio rerio OX=7955 GN=dcaf10 PE=2 SV=2
Q8AVS9	DDB1- and CUL4-associated factor 10 OS=Xenopus laevis OX=8355 GN=dcaf10 PE=2 SV=1
Q5FW06	DDB1- and CUL4-associated factor 10 OS=Xenopus tropicalis OX=8364 GN=dcaf10 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008763 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR039085 all species →	Family	DDB1- and CUL4-associated factor 10	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14588 all species →	DDB1- AND CUL4-ASSOCIATED FACTOR 10	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0080008 all species →	Cellular Component	Cul4-RING E3 ubiquitin ligase complex	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
K11802	DCAF10; DDB1- and CUL4-associated factor 10	-	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_006365-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

11.1Max TPM

2.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.59	4.36
polyp at pH7 6	18	17	2.22	4.44
coral polyp · control treatment	16	16	3.29	11.14
coral polyp · oil and dispersant treatment	16	16	1.89	3.66
coral polyp · oil treatment	16	16	2.59	3.80
coral polyp · dispersant treatment	16	16	1.53	2.95
Polyp	10	10	2.69	4.04

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.36
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.70
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.50
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.32
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.13
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.78
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.69
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.34
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.28
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.06
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.31
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.06
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.05
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.09
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.66
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.48
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.42
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.12
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.03
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.14
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.72
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.48
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.11
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.56
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.30
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.89
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.43
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.45
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.80
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.59
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.85
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.33
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.90
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.45
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.83
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.67
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.64
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.54
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.96
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.86
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.46
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.61
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.84
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.74
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.48

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.