Gene detail

Detailed information of OS493_036712-T1 in Lophelia pertusa

Genomic Location: scaffold_380:216025...219046
NR annotation: KAJ7382161.1, hypothetical protein OS493_036712 [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)	OG0002769 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08652 all species →	RAI1	RAI1 like PD-(D/E)XK nuclease	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013961 all species →	Domain	RAI1-like	Interproscan
IPR039039 all species →	Family	RAI1-like family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12395 all species →	DOM-3 RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000956 all species →	Biological Process	nuclear-transcribed mRNA catabolic process	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0034353 all species →	Molecular Function	mRNA 5'-diphosphatase activity	Interproscan
GO:0090305 all species →	Biological Process	obsolete nucleic acid phosphodiester bond hydrolysis	Interproscan
GO:0110155 all species →	Biological Process	NAD-cap decapping	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_036712-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_036712-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

87TPM > 0

7Conditions

8.6Max TPM

1.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	1.65	5.33
polyp at pH7 6	18	8	0.67	2.69
coral polyp · control treatment	16	15	2.34	5.92
coral polyp · oil and dispersant treatment	16	15	1.58	5.57
coral polyp · oil treatment	16	16	2.49	6.42
coral polyp · dispersant treatment	16	14	1.60	6.12
Polyp	10	8	2.41	8.65

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.33
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.18
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.42
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	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
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.29
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.57
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.15
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
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	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
SRR11359517	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
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.92
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.91
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.96
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.92
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.41
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.17
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.87
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.87
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.56
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.79
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.19
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.06
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.04
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.01
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.17
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.17
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.42
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.55
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.71
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.34
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.34
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR16705967	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
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.48
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.36
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.29
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.63
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.24
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.