Gene detail

Detailed information of OS493_028903-T1 in Lophelia pertusa

Genomic Location: scaffold_171:196598...198276
NR annotation: KAJ7377462.1, Optic atrophy 3 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
Q1L9A2	Optic atrophy 3 protein homolog OS=Danio rerio OX=7955 GN=opa3 PE=3 SV=1
Q9H6K4	Optic atrophy 3 protein OS=Homo sapiens OX=9606 GN=OPA3 PE=1 SV=1
Q505D7	Optic atrophy 3 protein homolog OS=Mus musculus OX=10090 GN=Opa3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008171 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07047 all species →	OPA3	Optic atrophy 3 protein (OPA3)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010754 all species →	Family	Optic atrophy 3-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12499 all species →	OPTIC ATROPHY 3 PROTEIN OPA3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0019216 all species →	Biological Process	regulation of lipid metabolic process	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
K23166	OPA3; optic atrophy 3 protein	-	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_028903-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

39.3Max TPM

7.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.28	12.39
polyp at pH7 6	18	18	7.80	11.64
coral polyp · control treatment	16	16	8.40	29.86
coral polyp · oil and dispersant treatment	16	16	7.39	39.31
coral polyp · oil treatment	16	16	7.83	13.63
coral polyp · dispersant treatment	16	16	3.57	7.94
Polyp	10	9	8.18	13.99

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.22
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.58
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.39
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.64
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.41
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.31
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.93
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.44
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.19
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.40
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.36
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.56
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.46
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.11
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.86
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.33
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.49
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.47
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.38
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.14
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.96
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.31
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.06
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.58
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.72
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.33
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.58
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.44
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.30
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.16
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.50
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.35
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.56
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.30
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.98
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.24
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.71
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.19
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.91
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.84
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.17
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.35
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.28
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.19
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.13
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.82
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.32
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.16
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.51
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.66
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.06
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.17
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.