Gene detail

Detailed information of OS493_018207-T1 in Lophelia pertusa

Genomic Location: scaffold_60:80823...81152
NR annotation: KAJ7333038.1, hypothetical protein OS493_018207 [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)	OG0001687 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_018207-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR042214 all species →	Homologous_superfamily	Pseudouridine synthase, TruD, catalytic domain	Interproscan
IPR020103 all species →	Homologous_superfamily	Pseudouridine synthase, catalytic domain superfamily	Interproscan

PANTHER

No PANTHER signature was recorded for OS493_018207-T1 in Lophelia pertusa.

Gene Ontology

GO term	Category	Description	Source
GO:0001522 all species →	Biological Process	pseudouridine synthesis	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0009451 all species →	Biological Process	RNA modification	Interproscan
GO:0009982 all species →	Molecular Function	pseudouridine synthase 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_018207-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_018207-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

110TPM > 0

7Conditions

11.6Max TPM

3.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.93	7.88
polyp at pH7 6	18	18	4.95	8.91
coral polyp · control treatment	16	16	2.16	6.71
coral polyp · oil and dispersant treatment	16	16	1.62	6.57
coral polyp · oil treatment	16	16	2.73	9.14
coral polyp · dispersant treatment	16	16	1.59	5.66
Polyp	10	10	5.59	11.60

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.88
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.07
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.88
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.85
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.14
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.37
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.91
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.45
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.81
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.75
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.27
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.20
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.59
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.50
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.37
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.06
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.18
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.71
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.45
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.73
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.38
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.09
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.93
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.43
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.10
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.75
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.11
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.98
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.09
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.72
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.62
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.45
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.06
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.61
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.32
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.60
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.41
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.96
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.53
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.44
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.72
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.24

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.