Gene detail

Detailed information of OS493_012518-T1 in Lophelia pertusa

Genomic Location: scaffold_33:113753...117477
NR annotation: KAJ7379772.1, hypothetical protein OS493_012518 [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
P31684	4-coumarate--CoA ligase 1 OS=Solanum tuberosum OX=4113 GN=4CL1 PE=3 SV=1
A0A2H5AIY4	4-coumarate-CoA ligase 2 OS=Narcissus pseudonarcissus OX=39639 GN=4CL2 PE=2 SV=1
O24540	4-coumarate--CoA ligase OS=Vanilla planifolia OX=51239 GN=4CL 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_012518-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_012518-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

107TPM > 0

7Conditions

40.6Max TPM

8.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.73	15.51
polyp at pH7 6	18	16	8.13	14.57
coral polyp · control treatment	16	16	11.63	40.60
coral polyp · oil and dispersant treatment	16	16	6.84	19.49
coral polyp · oil treatment	16	16	11.88	27.26
coral polyp · dispersant treatment	16	16	5.97	10.37
Polyp	10	9	6.74	20.35

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.51
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.64
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.96
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.27
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.77
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.25
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.76
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.01
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.25
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.02
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.57
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.85
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.19
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.22
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.83
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.76
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.35
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.76
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.95
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.42
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
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
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.23
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.13
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.92
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.94
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.31
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.65
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.44
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.38
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.32
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.39
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.49
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.78
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.79
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.13
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.09
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.45
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.39
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	2.67
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.64
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.62
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.20
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.18
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.74
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.34
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.97
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.22
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.22
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.91
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.28
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.81
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.74
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.35
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.13
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.60
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.62
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.48
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.94
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.62
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.