Gene detail

Detailed information of OS493_022303-T1 in Lophelia pertusa

Genomic Location: scaffold_90:1518589...1524203
NR annotation: KAJ7330687.1, DDB1- and CUL4-associated factor 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
Q5U2M6	DDB1- and CUL4-associated factor 8 OS=Rattus norvegicus OX=10116 GN=Dcaf8 PE=1 SV=1
Q5TAQ9	DDB1- and CUL4-associated factor 8 OS=Homo sapiens OX=9606 GN=DCAF8 PE=1 SV=1
Q8N7N5	DDB1- and CUL4-associated factor 8 OS=Mus musculus OX=10090 GN=Dcaf8 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003164 (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
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · 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
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR045151 all species →	Family	DDB1- and CUL4-associated factor 8-like	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15574 all species →	WD REPEAT DOMAIN-CONTAINING FAMILY	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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
K11804	DCAF8; DDB1- and CUL4-associated factor 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_022303-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

131.2Max TPM

69.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	68.95	95.89
polyp at pH7 6	18	18	70.47	93.75
coral polyp · control treatment	16	16	76.44	109.07
coral polyp · oil and dispersant treatment	16	16	89.11	131.20
coral polyp · oil treatment	16	16	74.24	105.60
coral polyp · dispersant treatment	16	16	53.23	80.95
Polyp	10	10	46.54	86.75

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.13
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.63
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.01
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.28
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.33
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.64
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.21
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.12
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.79
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.29
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.73
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	86.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.91
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.79
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.77
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.73
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.89
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.35
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.18
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.03
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	109.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.87
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.60
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.27
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.14
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.90
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.57
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.34
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.23
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.59
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.50
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	131.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	125.78
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	102.34
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.30
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.72
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.89
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.25
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.86
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.27
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.98
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.43
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	105.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.30
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.97
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.81
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.25
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.09
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.03
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.40
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.66
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.84
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	59.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.12
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.54
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.20
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.12
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.90
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.17
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.85
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	86.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	68.77
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	65.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	63.84
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	44.30
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	39.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	32.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	23.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	20.66
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	20.62

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.