Gene detail

Detailed information of OS493_024781-T1 in Lophelia pertusa

Genomic Location: scaffold_117:705059...708893
NR annotation: KAJ7378116.1, Ubiquinone biosynthesis protein [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
Q28CM7	Ubiquinone biosynthesis protein COQ4 homolog, mitochondrial OS=Xenopus tropicalis OX=8364 GN=coq4 PE=2 SV=1
Q05B52	Ubiquinone biosynthesis protein COQ4 homolog, mitochondrial OS=Bos taurus OX=9913 GN=COQ4 PE=2 SV=2
A7SNR3	Ubiquinone biosynthesis protein COQ4 homolog, mitochondrial OS=Nematostella vectensis OX=45351 GN=v1g191789 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004123 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05019 all species →	Coq4	Coenzyme Q (ubiquinone) biosynthesis protein Coq4	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007715 all species →	Family	Ubiquinone biosynthesis protein Coq4	Interproscan
IPR027540 all species →	Family	Ubiquinone biosynthesis protein Coq4, eukaryotic	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12922 all species →	UBIQUINONE BIOSYNTHESIS PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006744 all species →	Biological Process	ubiquinone biosynthetic process	Interproscan
GO:0005743 all species →	Cellular Component	mitochondrial inner 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K18586	COQ4; ubiquinone biosynthesis protein COQ4	-	Cofactor metabolism	-	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_024781-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

36.6Max TPM

7.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.16	11.14
polyp at pH7 6	18	18	6.13	9.43
coral polyp · control treatment	16	16	12.22	36.64
coral polyp · oil and dispersant treatment	16	16	6.28	20.37
coral polyp · oil treatment	16	16	9.27	14.66
coral polyp · dispersant treatment	16	16	5.55	14.93
Polyp	10	9	7.12	16.58

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	-	11.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.82
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.61
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.59
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.21
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.88
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.91
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.57
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.48
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.43
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.16
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.22
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.63
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.76
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.69
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.46
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.15
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.52
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.30
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.67
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.03
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.74
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.70
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.87
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.74
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.50
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.13
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.11
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.74
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.37
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.62
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.97
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.70
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.50
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.41
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.20
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.02
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.64
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.43
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.63
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.36
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.93
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.65
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.21
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.55
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.37
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.93
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.28
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.93
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.11
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.58
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.50
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.39
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.35
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.47
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.