Gene detail

Detailed information of OS493_012989-T1 in Lophelia pertusa

Genomic Location: scaffold_34:1958388...1960431
NR annotation: KAJ7373396.1, hypothetical protein OS493_012989 [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)	OG0011118 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02297 all species →	COX6B	Cytochrome oxidase c subunit VIb	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036549 all species →	Homologous_superfamily	Cytochrome c oxidase, subunit VIb superfamily	Interproscan
IPR042289 all species →	Family	Cytochrome c oxidase assembly factor 6 homolog	Interproscan
IPR048280 all species →	Family	Cytochrome oxidase c subunit VIb-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46690 all species →	CYTOCHROME C OXIDASE ASSEMBLY FACTOR 6 HOMOLOG	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0045277 all species →	Cellular Component	respiratory chain complex IV	Interproscan
GO:0008535 all species →	Biological Process	respiratory chain complex IV assembly	Interproscan
GO:0042775 all species →	Biological Process	mitochondrial ATP synthesis coupled electron transport	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_012989-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_012989-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

141.9Max TPM

60.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	55.20	74.62
polyp at pH7 6	18	17	62.79	90.35
coral polyp · control treatment	16	16	66.92	141.93
coral polyp · oil and dispersant treatment	16	16	48.28	76.72
coral polyp · oil treatment	16	16	65.61	88.24
coral polyp · dispersant treatment	16	16	41.88	60.40
Polyp	10	10	91.25	123.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.62
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.85
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.35
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.77
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.94
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.06
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.37
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.03
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.90
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.90
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.06
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.35
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.35
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.57
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.96
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.25
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.95
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.72
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.17
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.12
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.55
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	141.93
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.28
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.06
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.66
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.61
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.81
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.78
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.60
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.72
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.08
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.38
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.72
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.43
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.69
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.27
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.05
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.08
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.89
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.95
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.05
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.97
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.63
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.02
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.47
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.45
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.06
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.87
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.76
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.66
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.15
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	123.05
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	116.25
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	111.71
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	103.89
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	101.75
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	89.93
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	82.67
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	77.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	69.92
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	36.12

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.