Gene detail

Detailed information of OS493_034464-T1 in Lophelia pertusa

Genomic Location: scaffold_291:304159...312285
NR annotation: KAJ7376474.1, Acyl-coenzyme A synthetase acsm5, 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
Q8PF09	Acetyl-coenzyme A synthetase OS=Xanthomonas axonopodis pv. citri (strain 306) OX=190486 GN=acsA PE=3 SV=1
Q4UP35	Acetyl-coenzyme A synthetase OS=Xanthomonas campestris pv. campestris (strain 8004) OX=314565 GN=acsA PE=3 SV=1
Q8P3L1	Acetyl-coenzyme A synthetase OS=Xanthomonas campestris pv. campestris (strain ATCC 33913 / DSM 3586 / NCPPB 528 / LMG 568 / P 25) OX=190485 GN=acsA PE=3 SV=1

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13193 all species →	AMP-binding_C	AMP-binding enzyme C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045851 all species →	Homologous_superfamily	AMP-binding enzyme, C-terminal domain superfamily	Interproscan
IPR051087 all species →	Family	Mitochondrial Acyl-CoA Synthetase Medium-Chain	Interproscan
IPR025110 all species →	Domain	AMP-binding enzyme, C-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_034464-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_034464-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

95TPM > 0

7Conditions

35.9Max TPM

8.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	6.52	17.09
polyp at pH7 6	18	12	5.52	17.10
coral polyp · control treatment	16	14	8.80	25.54
coral polyp · oil and dispersant treatment	16	13	7.48	21.19
coral polyp · oil treatment	16	15	9.12	29.59
coral polyp · dispersant treatment	16	15	5.46	23.19
Polyp	10	10	16.49	35.88

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	-	17.09
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.01
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.74
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.19
SRR11359494	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
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.10
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.54
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.04
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.87
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.01
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.51
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359512	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
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.54
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.49
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.63
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.90
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.94
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.23
SRR16705965	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
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.19
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.18
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.49
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.88
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.47
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.30
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	4.65
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.76
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.15
SRR16705945	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
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.59
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.37
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.72
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.07
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.96
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.66
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.61
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.67
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.19
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.68
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.65
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.37
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.16
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	35.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.41
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.77
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.02
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.25
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.08

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.