Gene detail

Detailed information of OS493_012524-T1 in Lophelia pertusa

Genomic Location: scaffold_33:175870...178635
NR annotation: KAJ7379778.1, hypothetical protein OS493_012524 [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
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

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0086399 (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_012524-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_012524-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

74.1Max TPM

21.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.10	9.03
polyp at pH7 6	18	16	6.64	14.12
coral polyp · control treatment	16	16	25.65	64.38
coral polyp · oil and dispersant treatment	16	16	37.60	74.06
coral polyp · oil treatment	16	16	26.30	51.92
coral polyp · dispersant treatment	16	16	39.28	68.71
Polyp	10	8	3.51	10.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.03
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.71
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.53
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.41
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.97
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.68
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.30
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.74
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.98
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.85
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.99
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.93
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.92
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
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.38
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.90
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.33
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.20
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.96
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.17
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.56
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.05
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.67
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.05
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.82
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.28
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.01
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.06
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.09
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.65
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.85
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.57
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.42
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.79
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.72
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.17
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.63
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.74
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.22
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.93
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.97
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.49
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.38
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.78
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.88
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.62
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.78
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.78
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.98
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.95
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.57
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.49
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.56
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.23
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.50
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.62
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.20
SRR7746667	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.