Gene detail

Detailed information of OS493_015206-T1 in Lophelia pertusa

Genomic Location: scaffold_44:1992209...2003235
NR annotation: KAJ7385618.1, smoothened signaling pathway [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)	OG0004660 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_015206-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR026501 all species →	Family	Limbin/EvC complex member EVC	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16795 all species →	LIMBIN/ELLIS-VAN CREVELD PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007224 all species →	Biological Process	smoothened signaling pathway	Interproscan
GO:0060170 all species →	Cellular Component	ciliary membrane	Interproscan
GO:0098797 all species →	Cellular Component	plasma membrane protein 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_015206-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_015206-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

107TPM > 0

7Conditions

72.5Max TPM

11.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.39	8.71
polyp at pH7 6	18	16	4.06	9.49
coral polyp · control treatment	16	16	18.33	72.53
coral polyp · oil and dispersant treatment	16	16	20.83	62.15
coral polyp · oil treatment	16	16	12.84	24.20
coral polyp · dispersant treatment	16	16	12.24	20.61
Polyp	10	9	4.69	15.64

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	-	8.71
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.60
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.41
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.16
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.19
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.85
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.52
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.77
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.52
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.47
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.29
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.67
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.68
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.92
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.61
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.23
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.88
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.59
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.58
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.55
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.24
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.23
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.67
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.83
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.72
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.15
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.14
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.91
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.69
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.40
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.13
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.43
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.52
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.28
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.20
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.12
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.65
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.24
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.84
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.22
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.18
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.78
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.17
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.49
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.54
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.33
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.21
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.80
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.59
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.49
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.79
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.87
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.64
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.29
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.07
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.45
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.49
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.41
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.99
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.