Gene detail

Detailed information of OS493_002767-T1 in Lophelia pertusa

Genomic Location: scaffold_6:69666...79996
NR annotation: KAJ7340044.1, ATP-binding cassette sub- F member 3 [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)	OG0000432 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04089 all species →	BRICHOS	BRICHOS domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007084 all species →	Domain	BRICHOS domain	Interproscan
IPR001729 all species →	Family	Pulmonary surfactant-associated protein C	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10800 all species →	PULMONARY SURFACTANT-ASSOCIATED PROTEIN C	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0007585 all species →	Biological Process	respiratory gaseous exchange by respiratory system	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_002767-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_002767-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

110TPM > 0

7Conditions

282.1Max TPM

57.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	38.81	85.77
polyp at pH7 6	18	18	115.19	282.12
coral polyp · control treatment	16	16	79.77	162.02
coral polyp · oil and dispersant treatment	16	16	40.28	113.13
coral polyp · oil treatment	16	16	46.38	119.16
coral polyp · dispersant treatment	16	16	46.02	96.75
Polyp	10	10	16.33	50.53

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	-	85.77
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.05
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.95
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.73
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.65
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.42
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.83
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.36
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.57
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.30
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.61
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.29
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	282.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	276.41
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	269.34
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	255.12
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	207.67
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	182.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.87
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.86
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.18
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.94
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.34
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.60
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.45
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	162.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	137.32
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	122.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	120.92
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.39
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.46
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.38
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.44
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.29
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.97
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.52
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.69
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.91
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.49
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.18
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.09
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.54
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.10
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.99
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.33
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	119.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	93.61
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.44
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.43
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.43
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.05
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.46
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.68
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.06
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.20
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.56
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.63
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.39
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.86
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.12
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.61
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.44
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.22
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.66
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.46
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	50.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	19.98
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.32
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.12
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.28
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.78
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	11.97
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.96
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.71
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.61

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.