Gene detail

Detailed information of OS493_024750-T1 in Lophelia pertusa

Genomic Location: scaffold_117:499684...511626
NR annotation: KAJ7378087.1, RNA endoribonuclease [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)	OG0004303 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_024750-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR052626 all species →	Family	SWT1 Transcriptional Regulator	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16161 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	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_024750-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_024750-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

108TPM > 0

7Conditions

7.9Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.16	4.78
polyp at pH7 6	18	18	4.29	7.88
coral polyp · control treatment	16	16	2.96	5.71
coral polyp · oil and dispersant treatment	16	16	1.56	5.73
coral polyp · oil treatment	16	16	2.42	5.30
coral polyp · dispersant treatment	16	15	1.64	3.46
Polyp	10	9	1.83	3.53

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.78
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.33
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.23
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.56
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.28
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.88
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.54
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.87
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.66
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.88
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.85
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.68
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.39
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.10
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.71
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.13
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.20
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.95
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.77
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.45
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.30
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.10
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.73
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.37
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.99
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.98
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.66
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.82
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.70
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.53
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.30
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.19
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.09
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.38
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.69
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.25
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.55
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.52
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.12
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.53
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.56
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.78
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.69
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.70
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.40
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.