Gene detail

Detailed information of OS493_018008-T1 in Lophelia pertusa

Genomic Location: scaffold_58:1634718...1637657
NR annotation: KAJ7372733.1, Cytochrome c oxidase assembly protein cox19 [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
A8E4L1	Cytochrome c oxidase assembly protein COX19 OS=Bos taurus OX=9913 GN=COX19 PE=3 SV=1
Q8K0C8	Cytochrome c oxidase assembly protein COX19 OS=Mus musculus OX=10090 GN=Cox19 PE=1 SV=1
Q49B96	Cytochrome c oxidase assembly protein COX19 OS=Homo sapiens OX=9606 GN=COX19 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010016 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_018008-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR051383 all species →	Family	Cytochrome c oxidase assembly protein COX19	Interproscan
IPR009069 all species →	Homologous_superfamily	Cysteine alpha-hairpin motif superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21107 all species →	CYTOCHROME C OXIDASE ASSEMBLY PROTEIN COX19	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005758 all species →	Cellular Component	mitochondrial intermembrane space	Interproscan
GO:0033617 all species →	Biological Process	mitochondrial cytochrome c oxidase assembly	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
K18183	COX19; cytochrome c oxidase assembly protein subunit 19	-	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_018008-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

59.3Max TPM

13.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.33	21.60
polyp at pH7 6	18	18	16.27	28.82
coral polyp · control treatment	16	16	14.82	26.71
coral polyp · oil and dispersant treatment	16	16	12.38	59.30
coral polyp · oil treatment	16	16	13.82	17.77
coral polyp · dispersant treatment	16	16	7.86	12.83
Polyp	10	10	17.50	25.15

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	-	21.60
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.30
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.61
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.34
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.89
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.21
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.91
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.43
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.40
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.35
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.35
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.72
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.72
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.99
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.45
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.09
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.06
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.81
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.35
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.11
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.81
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.22
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.49
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.23
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.05
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.71
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.35
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.57
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.16
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.96
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.88
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.61
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.48
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.10
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.50
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.05
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.88
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.35
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.29
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.22
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.71
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.89
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.72
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.27
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.01
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.89
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.24
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.41
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.14
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.90
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.89
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.87
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.38
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.25
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.91
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	25.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.75
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.44
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	17.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.28
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.71
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	13.60
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.39

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.