Gene detail

Detailed information of OS493_031297-T1 in Lophelia pertusa

Genomic Location: scaffold_213:678388...679569
NR annotation: KAJ7377023.1, 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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

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

Pfam domain

No Pfam domain signature was detected for OS493_031297-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR047319 all species →	Domain	DDB1- and CUL4-associated factor 15, C-terminal 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_031297-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_031297-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

30.2Max TPM

3.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.51	7.42
polyp at pH7 6	18	17	4.09	11.91
coral polyp · control treatment	16	16	4.97	21.04
coral polyp · oil and dispersant treatment	16	16	4.45	30.20
coral polyp · oil treatment	16	16	4.13	7.52
coral polyp · dispersant treatment	16	16	1.44	3.13
Polyp	10	10	3.85	6.59

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.39
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.29
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.63
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.27
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.73
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.91
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.48
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.40
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.99
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.25
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.04
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.56
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.54
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.87
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.25
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.43
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.94
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.16
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.20
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.11
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.06
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.81
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.92
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.31
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.35
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.10
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.89
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.31
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.26
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.16
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.13
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.55
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.05
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.95
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.80
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.59
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.41
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.33
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.24
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.94
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.25
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.70

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.