Gene detail

Detailed information of OS493_012526-T1 in Lophelia pertusa

Genomic Location: scaffold_33:180365...182962
NR annotation: KAJ7379780.1, hypothetical protein OS493_012526 [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
Q54P79	Probable 4-coumarate--CoA ligase 3 OS=Dictyostelium discoideum OX=44689 GN=4cl3 PE=3 SV=2
Q26304	Luciferin 4-monooxygenase OS=Luciola mingrelica OX=27446 PE=1 SV=1
Q54P77	Probable 4-coumarate--CoA ligase 1 OS=Dictyostelium discoideum OX=44689 GN=4cl1 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
PF13193 all species →	AMP-binding_C	AMP-binding enzyme C-terminal domain	Domain	Interproscan
PF00501 all species →	AMP-binding	AMP-binding enzyme	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042099 all species →	Homologous_superfamily	ANL, N-terminal domain	Interproscan
IPR025110 all species →	Domain	AMP-binding enzyme, C-terminal domain	Interproscan
IPR045851 all species →	Homologous_superfamily	AMP-binding enzyme, C-terminal domain superfamily	Interproscan
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_012526-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_012526-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

102TPM > 0

7Conditions

48.1Max TPM

11.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	3.07	5.68
polyp at pH7 6	18	15	3.75	6.78
coral polyp · control treatment	16	16	13.13	32.69
coral polyp · oil and dispersant treatment	16	16	20.94	41.06
coral polyp · oil treatment	16	16	12.29	25.17
coral polyp · dispersant treatment	16	16	23.21	48.06
Polyp	10	8	1.23	4.43

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.37
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.94
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.05
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.91
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.66
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.78
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.21
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.39
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.59
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.28
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.90
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.24
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.17
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.60
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.59
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.72
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.28
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.65
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.94
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.06
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.61
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.79
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.58
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.65
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.49
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.21
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.60
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.55
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.13
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.60
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.81
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.45
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.28
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.08
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.97
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.96
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.13
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.82
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.82
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.46
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.78
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.08
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.41
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.09
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.87
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.32
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.18
SRR23025712	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.