Gene detail

Detailed information of OS493_031298-T1 in Lophelia pertusa

Genomic Location: scaffold_213:679625...684295
NR annotation: KAJ7377024.1, protein ubiquitination [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
Q3SZD5	DDB1- and CUL4-associated factor 15 OS=Bos taurus OX=9913 GN=DCAF15 PE=2 SV=1
Q66K64	DDB1- and CUL4-associated factor 15 OS=Homo sapiens OX=9606 GN=DCAF15 PE=1 SV=1
Q6PFH3	DDB1- and CUL4-associated factor 15 OS=Mus musculus OX=10090 GN=Dcaf15 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006453 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14939 all species →	DCAF15_WD40	DDB1-and CUL4-substrate receptor 15, WD repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032734 all species →	Domain	DDB1- and CUL4-associated factor 15, WD40 repeat-containing domain	Interproscan
IPR038914 all species →	Family	DDB1- and CUL4-associated factor 15	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28541 all species →	DDB1- AND CUL4-ASSOCIATED FACTOR 15	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016567 all species →	Biological Process	protein ubiquitination	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

No KEGG orthology assignment for OS493_031298-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_031298-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

108TPM > 0

7Conditions

12.5Max TPM

1.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.80	3.16
polyp at pH7 6	18	18	1.77	3.10
coral polyp · control treatment	16	16	2.50	12.51
coral polyp · oil and dispersant treatment	16	16	1.59	7.30
coral polyp · oil treatment	16	16	1.83	3.48
coral polyp · dispersant treatment	16	16	0.80	1.71
Polyp	10	8	0.83	2.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.69
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.50
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.71
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.24
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.04
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.87
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.25
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.75
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.73
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.62
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.55
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.54
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.42
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.49
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.51
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.22
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.08
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.35
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.46
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.46
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.30
SRR16705946	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
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.30
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.19
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.89
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.78
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.71
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.54
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.02
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.92
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.43
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.80
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.78
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.93
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.27
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.29
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.01
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.01
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.22
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.