Gene detail

Detailed information of OS493_036703-T1 in Lophelia pertusa

Genomic Location: scaffold_380:157529...158891
NR annotation: KAJ7382153.1, hypothetical protein OS493_036703 [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_036703-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_036703-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

18.3Max TPM

3.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.28	16.95
polyp at pH7 6	18	15	2.92	4.88
coral polyp · control treatment	16	16	4.60	18.32
coral polyp · oil and dispersant treatment	16	16	2.03	6.54
coral polyp · oil treatment	16	16	3.55	8.59
coral polyp · dispersant treatment	16	16	2.56	9.11
Polyp	10	9	2.03	6.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.95
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.50
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.80
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.61
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.42
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.37
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.83
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.51
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.56
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.45
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.89
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.60
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.97
SRR11359501	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
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.92
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.15
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.87
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.54
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.21
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.54
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.72
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.27
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.28
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.43
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.42
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.18
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.59
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.04
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.69
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.57
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.59
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.94
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.21
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.14
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.66
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.72
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.07
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.14
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.96
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.72
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.66
SRR23025712	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.