Gene detail

Detailed information of OS493_034460-T1 in Lophelia pertusa

Genomic Location: scaffold_291:248819...257446
NR annotation: KAJ7376470.1, Acyl-coenzyme A synthetase acsm4, mitochondrial-like [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
P0C7M7	Acyl-coenzyme A synthetase ACSM4, mitochondrial OS=Homo sapiens OX=9606 GN=ACSM4 PE=1 SV=1
Q6NUN0	Acyl-coenzyme A synthetase ACSM5, mitochondrial OS=Homo sapiens OX=9606 GN=ACSM5 PE=1 SV=2
Q3UNX5	Acyl-coenzyme A synthetase ACSM3, mitochondrial OS=Mus musculus OX=10090 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
PF13193 all species →	AMP-binding_C	AMP-binding enzyme C-terminal domain	Domain	Interproscan
PF00501 all species →	AMP-binding	AMP-binding enzyme	Family	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
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_034460-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_034460-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

24.8Max TPM

9.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.42	13.06
polyp at pH7 6	18	18	8.39	14.56
coral polyp · control treatment	16	16	11.04	24.80
coral polyp · oil and dispersant treatment	16	16	10.67	20.30
coral polyp · oil treatment	16	16	11.99	22.83
coral polyp · dispersant treatment	16	16	7.47	16.65
Polyp	10	10	3.15	4.91

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	-	13.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.04
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.51
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.93
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.27
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.18
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.03
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.84
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.48
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.06
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.72
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.53
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.46
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.07
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.14
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.56
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.05
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.29
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.80
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.51
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.79
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.85
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.02
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.80
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.55
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.28
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.15
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.49
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.75
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.04
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.98
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.28
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.55
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.24
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.31
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.16
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.94
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.91
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.62
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.51
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.49
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.19
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.83
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.50
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.68
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.99
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.37
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.74
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.32
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.34
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.65
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.26
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.11
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.72
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.28
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.34
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.91
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.75
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.19
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.18
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.61
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.57
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.33
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.46

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.