Gene detail

Detailed information of OS493_012937-T1 in Lophelia pertusa

Genomic Location: scaffold_34:1437610...1440653
NR annotation: KAJ7373345.1, Cytochrome c oxidase assembly protein cox20, mitochondrial [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)

UniProt accession	Description
Q6DH88	Cytochrome c oxidase assembly protein COX20, mitochondrial OS=Danio rerio OX=7955 GN=cox20 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009955 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12597 all species →	Cox20	Cytochrome c oxidase assembly protein COX20	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022533 all species →	Family	Cox20	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31586 all species →	CYTOCHROME C OXIDASE PROTEIN 20	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005743 all species →	Cellular Component	mitochondrial inner membrane	Interproscan
GO:0033617 all species →	Biological Process	mitochondrial cytochrome c oxidase assembly	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K18184	COX20; cytochrome c oxidase assembly protein subunit 20	-	Mitochondrial biogenesis	ko03029	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_012937-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

71.4Max TPM

21.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	25.46	40.08
polyp at pH7 6	18	18	26.11	39.70
coral polyp · control treatment	16	16	27.64	71.44
coral polyp · oil and dispersant treatment	16	16	15.13	25.90
coral polyp · oil treatment	16	16	22.16	41.29
coral polyp · dispersant treatment	16	16	13.31	29.30
Polyp	10	10	19.66	50.77

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.08
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.26
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.22
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.46
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.88
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.85
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.32
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.33
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.94
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.76
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.23
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.49
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.56
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.70
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.96
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.17
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.39
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.32
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.72
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.72
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.59
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.32
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.21
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.73
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.18
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.99
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.86
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.80
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.48
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.07
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.96
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.72
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.11
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.84
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.12
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.89
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.07
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.90
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.44
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.35
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.96
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.11
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.07
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.34
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.94
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.73
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.57
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.04
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.29
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.60
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.89
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.64
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.74
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.87
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.59
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.27
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.30
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.62
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.05
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.51
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.06
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.45
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.81
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.01
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.85
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	50.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	32.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	24.03
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.50
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.14
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.12
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.72
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.65
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.24

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.