Gene detail

Detailed information of OS493_009154-T1 in Lophelia pertusa

Genomic Location: scaffold_22:522827...534322
NR annotation: KAJ7373832.1, Sortilin- receptor [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)	OG0000638 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15902 all species →	Sortilin-Vps10	Sortilin, neurotensin receptor 3,	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006581 all species →	Domain	VPS10	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR050310 all species →	Family	VPS10-related sortilin family receptors	Interproscan
IPR031778 all species →	Domain	Sortilin, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12106 all species →	SORTILIN RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0006892 all species →	Biological Process	post-Golgi vesicle-mediated transport	Interproscan
GO:0016021 all species →	Cellular Component	membrane	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_009154-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_009154-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

106TPM > 0

7Conditions

72.6Max TPM

23.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.75	23.21
polyp at pH7 6	18	16	15.55	33.85
coral polyp · control treatment	16	16	31.13	72.60
coral polyp · oil and dispersant treatment	16	16	40.35	67.59
coral polyp · oil treatment	16	16	23.51	62.95
coral polyp · dispersant treatment	16	16	30.46	52.68
Polyp	10	8	3.68	9.40

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	-	23.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.49
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.37
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.37
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.41
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.63
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.30
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.20
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.10
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.10
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.69
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.87
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.80
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.52
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.26
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.97
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.76
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.10
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.90
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.24
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.64
SRR11359524	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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.60
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.94
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.85
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.96
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.65
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.83
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.11
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.89
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.52
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.79
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.50
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.87
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.02
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.34
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.78
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.95
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.32
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.45
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.41
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.71
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.55
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.40
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.15
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.73
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.68
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.02
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.82
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.67
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.87
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.13
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.59
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.40
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.53
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.45
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.81
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.