Gene detail

Detailed information of OS493_039476-T1 in Lophelia pertusa

Genomic Location: scaffold_1189:3167...7055
NR annotation: KAJ7388163.1, Acyl-CoA synthetase short-chain member 3, 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
Q5REB8	Acyl-CoA synthetase short-chain family member 3, mitochondrial OS=Pongo abelii OX=9601 GN=ACSS3 PE=2 SV=1
Q9H6R3	Acyl-CoA synthetase short-chain family member 3, mitochondrial OS=Homo sapiens OX=9606 GN=ACSS3 PE=1 SV=1
A0A0G2K047	Acyl-CoA synthetase short-chain family member 3, mitochondrial OS=Rattus norvegicus OX=10116 GN=Acss3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000999 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00501 all species →	AMP-binding	AMP-binding enzyme	Family	Interproscan
PF16177 all species →	ACAS_N	Acetyl-coenzyme A synthetase N-terminus	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR020845 all species →	Conserved_site	AMP-binding, conserved site	Interproscan
IPR000873 all species →	Domain	AMP-dependent synthetase/ligase domain	Interproscan
IPR032387 all species →	Domain	Acetyl-coenzyme A synthetase, N-terminal domain	Interproscan
IPR042099 all species →	Homologous_superfamily	ANL, N-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43347 all species →	ACYL-COA SYNTHETASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0050218 all species →	Molecular Function	propionate-CoA 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01908	ACSS3, prpE; propionyl-CoA synthetase	EC:6.2.1.17	Lipid biosynthesis proteins	ko01004	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_039476-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

106TPM > 0

7Conditions

71.2Max TPM

11.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.81	17.20
polyp at pH7 6	18	16	8.28	16.27
coral polyp · control treatment	16	16	14.34	38.42
coral polyp · oil and dispersant treatment	16	16	18.16	71.16
coral polyp · oil treatment	16	16	12.77	23.38
coral polyp · dispersant treatment	16	16	11.44	21.15
Polyp	10	8	1.83	5.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.20
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.09
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.70
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.80
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.22
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.70
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.72
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.51
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.21
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.40
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.27
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.10
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.98
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.50
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.98
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.79
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.96
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.21
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.08
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.42
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.70
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.22
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.41
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.56
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.66
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.59
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.38
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.02
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.16
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.33
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.01
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.94
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.53
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.23
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.32
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.82
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.53
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.79
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.06
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.65
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.11
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.97
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.08
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.92
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.19
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.08
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.92
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.21
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.15
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.87
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.68
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.16
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.02
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.64
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.96
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.46
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.23
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.70
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.41
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.92
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.32
SRR7746667	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.