Gene detail

Detailed information of OS493_012515-T1 in Lophelia pertusa

Genomic Location: scaffold_33:66650...68902
NR annotation: KAJ7379769.1, hypothetical protein OS493_012515 [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
Q54P77	Probable 4-coumarate--CoA ligase 1 OS=Dictyostelium discoideum OX=44689 GN=4cl1 PE=3 SV=1
Q54P78	Probable 4-coumarate--CoA ligase 2 OS=Dictyostelium discoideum OX=44689 GN=4cl2 PE=3 SV=1
P14912	4-coumarate--CoA ligase 1 OS=Petroselinum crispum OX=4043 GN=4CL1 PE=2 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_012515-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_012515-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

55.9Max TPM

7.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	5.03	7.35
polyp at pH7 6	18	15	4.50	9.16
coral polyp · control treatment	16	16	11.39	55.86
coral polyp · oil and dispersant treatment	16	16	9.23	50.93
coral polyp · oil treatment	16	16	7.64	15.66
coral polyp · dispersant treatment	16	16	7.48	12.25
Polyp	10	10	6.42	17.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.35
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.14
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.63
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.82
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.79
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.33
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.33
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.83
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.94
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.94
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.40
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.90
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.07
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.52
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.06
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.52
SRR11359500	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.22
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.32
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.83
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.20
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.54
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.63
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.60
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.77
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.93
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.44
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.98
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.06
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.62
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.36
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.27
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.90
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.87
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.16
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.66
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.44
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.82
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.83
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.81
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.12
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.62
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.61
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.50
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.16
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.11
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.16
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.73
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.81
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.81
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.92
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.92
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.91
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.57
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.68

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.