Gene detail

Detailed information of OS493_006070-T1 in Lophelia pertusa

Genomic Location: scaffold_12:4366794...4374447
NR annotation: KAJ7339663.1, hypothetical protein OS493_006070 [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)	OG0001774 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14369 all species →	zinc_ribbon_9	zinc-ribbon	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039525 all species →	Domain	E3 ubiquitin-protein ligase RNF126-like, zinc-ribbon	Interproscan

PANTHER

No PANTHER signature was detected for OS493_006070-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	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_006070-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_006070-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

189.2Max TPM

72.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	37.43	48.01
polyp at pH7 6	18	18	39.45	65.27
coral polyp · control treatment	16	16	78.98	115.62
coral polyp · oil and dispersant treatment	16	16	118.16	171.04
coral polyp · oil treatment	16	16	68.35	88.51
coral polyp · dispersant treatment	16	16	117.11	189.22
Polyp	10	9	43.50	68.77

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.86
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.78
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.60
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.37
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.59
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.41
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.37
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.43
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.72
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.34
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.27
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.65
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.21
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.20
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.28
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.07
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.56
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.84
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.80
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.58
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.02
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.37
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	115.62
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	114.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.75
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.74
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.43
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.93
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.36
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.87
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.75
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.66
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.15
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.99
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	171.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	141.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	141.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	139.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	139.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.97
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	122.61
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	111.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	102.13
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	95.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.26
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.65
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.51
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.57
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.97
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.61
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.52
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.73
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.28
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.13
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.10
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.73
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.89
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.63
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	189.22
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	151.82
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	133.54
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	133.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	130.51
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	129.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.49
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	111.99
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	108.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	106.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.34
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.66
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.89
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	68.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	66.41
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	55.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	55.01
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	49.59
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	43.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	35.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	34.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	27.02
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.