Gene detail

Detailed information of OS493_036710-T1 in Lophelia pertusa

Genomic Location: scaffold_380:204270...207544
NR annotation: KAJ7382159.1, hypothetical protein OS493_036710 [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
A7TS67	Decapping nuclease RAI1 OS=Vanderwaltozyma polyspora (strain ATCC 22028 / DSM 70294 / BCRC 21397 / CBS 2163 / NBRC 10782 / NRRL Y-8283 / UCD 57-17) OX=436907 GN=RAI1 PE=3 SV=1

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
IPR039039 all species →	Family	RAI1-like family	Interproscan
IPR013961 all species →	Domain	RAI1-like	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_036710-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_036710-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

86TPM > 0

7Conditions

7.4Max TPM

1.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	10	1.10	4.10
polyp at pH7 6	18	8	0.51	1.88
coral polyp · control treatment	16	16	2.99	7.40
coral polyp · oil and dispersant treatment	16	15	1.40	2.64
coral polyp · oil treatment	16	15	2.12	4.38
coral polyp · dispersant treatment	16	14	1.56	4.18
Polyp	10	8	1.65	4.49

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	-	4.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.22
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.95
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.87
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.15
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.03
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.57
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
SRR11359506	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
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
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.88
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.55
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.24
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.22
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.61
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.60
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
SRR11359505	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
SRR11359524	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
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.22
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.20
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.66
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.50
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.23
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.95
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.25
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.64
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.19
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.43
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	4.38
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.34
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.66
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.39
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.46
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.19
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.61
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.16
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR16705953	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	-	4.49
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.86
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.40
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.21
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.64
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.