Gene detail

Detailed information of OS493_012516-T1 in Lophelia pertusa

Genomic Location: scaffold_33:68989...71882
NR annotation: KAJ7379770.1, hypothetical protein OS493_012516 [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
C5D6U5	2-succinylbenzoate--CoA ligase OS=Geobacillus sp. (strain WCH70) OX=471223 GN=menE PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000834 (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
IPR000873 all species →	Domain	AMP-dependent synthetase/ligase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24096 all species →	LONG-CHAIN-FATTY-ACID--COA LIGASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016405 all species →	Molecular Function	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

No KEGG orthology assignment for OS493_012516-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_012516-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

101TPM > 0

7Conditions

41.6Max TPM

4.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	2.54	7.67
polyp at pH7 6	18	13	2.48	5.89
coral polyp · control treatment	16	16	7.65	41.61
coral polyp · oil and dispersant treatment	16	16	6.68	39.80
coral polyp · oil treatment	16	16	4.89	11.54
coral polyp · dispersant treatment	16	16	5.00	9.11
Polyp	10	9	3.00	4.99

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.67
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.45
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.17
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.05
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.58
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.73
SRR11359494	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
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.89
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.64
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.32
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.59
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.20
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.68
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.25
SRR11359500	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
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
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.26
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.14
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.08
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.99
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.86
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.22
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.08
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.68
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.02
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.80
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.26
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.41
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.74
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.54
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.85
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.65
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.65
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.31
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.59
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.33
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.18
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.49
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.11
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.69
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.81
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.22
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.28
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.10
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.35
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.89
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.91
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.