Gene detail

Detailed information of OS493_029708-T1 in Lophelia pertusa

Genomic Location: scaffold_183:343560...345546
NR annotation: KAJ7377349.1, hypothetical protein OS493_029708 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0011275 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02900 all species →	LigB	Catalytic LigB subunit of aromatic ring-opening dioxygenase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004183 all species →	Domain	Extradiol ring-cleavage dioxygenase, class III enzyme, subunit B	Interproscan

PANTHER

No PANTHER signature was detected for OS493_029708-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0006725 all species →	Biological Process	obsolete cellular aromatic compound metabolic process	Interproscan
GO:0008198 all species →	Molecular Function	ferrous iron binding	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase 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_029708-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_029708-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

12.7Max TPM

4.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.47	6.82
polyp at pH7 6	18	18	4.70	7.40
coral polyp · control treatment	16	16	5.11	12.70
coral polyp · oil and dispersant treatment	16	15	3.07	7.60
coral polyp · oil treatment	16	16	4.81	11.12
coral polyp · dispersant treatment	16	16	3.26	8.10
Polyp	10	8	1.90	4.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.40
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.63
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.79
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.72
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.12
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.63
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.26
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.99
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.82
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.59
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.55
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.52
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.97
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.94
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.32
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.64
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.01
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.45
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.82
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.27
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.92
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.71
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.12
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.97
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.61
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.32
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.96
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.92
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.78
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.18
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.16
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.86
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.93
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.10
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.94
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.70
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.63
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.16
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.94
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.38
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.01
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.89
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.39
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.53
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.