Gene detail

Detailed information of OS493_012519-T1 in Lophelia pertusa

Genomic Location: scaffold_33:117509...118679
NR annotation: KAJ7379773.1, hypothetical protein OS493_012519 [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
Q9LQ12	4-coumarate--CoA ligase-like 1 OS=Arabidopsis thaliana OX=3702 GN=4CLL1 PE=1 SV=1
A0A2H5AIX5	4-coumarate-CoA ligase 1 OS=Narcissus pseudonarcissus OX=39639 GN=4CL1 PE=2 SV=1
A0A6B9HER0	Piperic acid--CoA ligase OS=Piper nigrum OX=13216 PE=1 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
IPR020845 all species →	Conserved_site	AMP-binding, conserved site	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_012519-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_012519-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

98TPM > 0

7Conditions

22.1Max TPM

4.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.63	6.71
polyp at pH7 6	18	14	3.32	7.80
coral polyp · control treatment	16	14	7.00	22.07
coral polyp · oil and dispersant treatment	16	14	4.52	15.13
coral polyp · oil treatment	16	16	7.83	16.35
coral polyp · dispersant treatment	16	15	3.73	9.68
Polyp	10	9	3.03	9.92

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.71
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.15
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.08
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.66
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.12
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.25
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.96
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.91
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.88
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.47
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.08
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.33
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.84
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.83
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.69
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.16
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.53
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.87
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.40
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.45
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.30
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.26
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.35
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.92
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.09
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.71
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.96
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.88
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.28
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.68
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.98
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.99
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.99
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.92
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.77
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.41
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.10
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.10
SRR7746667	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.