Gene detail

Detailed information of OS493_039142-T1 in Lophelia pertusa

Genomic Location: scaffold_941:9606...16104
NR annotation: KAJ7348770.1, Acyl-coenzyme A synthetase acsm3, mitochondrial, partial [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
Q6SKG1	Acyl-coenzyme A synthetase ACSM3, mitochondrial OS=Rattus norvegicus OX=10116 GN=Acsm3 PE=2 SV=1
Q3UNX5	Acyl-coenzyme A synthetase ACSM3, mitochondrial OS=Mus musculus OX=10090 GN=Acsm3 PE=1 SV=2
Q53FZ2	Acyl-coenzyme A synthetase ACSM3, mitochondrial OS=Homo sapiens OX=9606 GN=ACSM3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001394 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00501 all species →	AMP-binding	AMP-binding enzyme	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051087 all species →	Family	Mitochondrial Acyl-CoA Synthetase Medium-Chain	Interproscan
IPR000873 all species →	Domain	AMP-dependent synthetase/ligase domain	Interproscan
IPR042099 all species →	Homologous_superfamily	ANL, N-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43605 all species →	ACYL-COENZYME A SYNTHETASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004321 all species →	Molecular Function	fatty-acyl-CoA synthase activity	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0006633 all species →	Biological Process	fatty acid biosynthetic process	Interproscan
GO:0006637 all species →	Biological Process	acyl-CoA metabolic process	Interproscan
GO:0015645 all species →	Molecular Function	fatty acid ligase activity	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_039142-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_039142-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

69TPM > 0

7Conditions

3.9Max TPM

0.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	8	0.59	3.88
polyp at pH7 6	18	8	0.52	1.94
coral polyp · control treatment	16	12	1.01	2.51
coral polyp · oil and dispersant treatment	16	10	0.51	2.24
coral polyp · oil treatment	16	12	1.25	3.74
coral polyp · dispersant treatment	16	14	1.59	3.91
Polyp	10	5	0.65	2.48

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	-	3.88
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.90
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.65
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.76
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.73
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.46
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.41
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.94
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.87
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.62
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.93
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.90
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.16
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.41
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.78
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.97
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.90
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.48
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.36
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.26
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.73
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.68
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.53
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.35
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.30
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.90
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.48
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.70
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.15
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.