Gene detail

Detailed information of OS493_003891-T1 in Lophelia pertusa

Genomic Location: scaffold_8:59662...63456
NR annotation: KAJ7386933.1, hypothetical protein OS493_003891 [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)	OG0001372 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_003891-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR052431 all species →	Family	SKI2 subfamily ATP-dependent RNA helicases	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR44533 all species →	DEAD/H RNA HELICASE, PUTATIVE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	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_003891-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_003891-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

80TPM > 0

7Conditions

27.0Max TPM

3.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	7.08	26.96
polyp at pH7 6	18	6	3.96	19.20
coral polyp · control treatment	16	15	2.62	8.63
coral polyp · oil and dispersant treatment	16	14	1.78	4.57
coral polyp · oil treatment	16	13	1.82	6.32
coral polyp · dispersant treatment	16	14	2.68	5.33
Polyp	10	5	0.58	1.61

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.96
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.19
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.92
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.36
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.15
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.87
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.91
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.20
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.69
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.73
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.63
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.10
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.06
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.93
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.53
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.79
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.96
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.78
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.24
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.57
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.85
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.68
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.99
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.81
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.76
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.72
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.63
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.83
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.36
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.14
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.79
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.61
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.59
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	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.