Gene detail

Detailed information of OS493_012521-T1 in Lophelia pertusa

Genomic Location: scaffold_33:145448...147359
NR annotation: KAJ7379775.1, hypothetical protein OS493_012521 [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
A0A6B9HER0	Piperic acid--CoA ligase OS=Piper nigrum OX=13216 PE=1 SV=1
Q0DV32	4-coumarate--CoA ligase-like 1 OS=Oryza sativa subsp. japonica OX=39947 GN=4CLL1 PE=2 SV=2
M4IQS1	Probable CoA ligase CCL10 OS=Humulus lupulus OX=3486 GN=CCL10 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0086398 (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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02732	PSMB1; 20S proteasome subunit beta 6	EC:3.4.25.1	Proteasome	ko03051	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_012521-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

78TPM > 0

7Conditions

15.7Max TPM

1.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	1.86	4.70
polyp at pH7 6	18	10	1.65	6.53
coral polyp · control treatment	16	12	1.65	4.09
coral polyp · oil and dispersant treatment	16	12	0.96	2.91
coral polyp · oil treatment	16	14	1.54	3.38
coral polyp · dispersant treatment	16	12	2.75	15.71
Polyp	10	7	1.04	2.23

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.70
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.67
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.51
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.26
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.13
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.10
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	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
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	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
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.53
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.87
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.66
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.45
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.34
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR11359516	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
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.09
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.30
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.47
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.20
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.72
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.91
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.69
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.27
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.97
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.66
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.29
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
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.38
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.97
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.59
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.39
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.92
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.80
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.73
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.62
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.60
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.24
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.84
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.23
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.66
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.24
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.24
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	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.