Gene detail

Detailed information of OS493_007551-T1 in Lophelia pertusa

Genomic Location: scaffold_16:3726777...3755400
NR annotation: KAJ7374445.1, hypothetical protein OS493_007551 [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)	OG0001607 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01223 all species →	Endonuclease_NS	DNA/RNA non-specific endonuclease	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040255 all species →	Family	Non-specific endonuclease	Interproscan
IPR001604 all species →	Domain	DNA/RNA non-specific endonuclease	Interproscan
IPR044925 all species →	Homologous_superfamily	His-Me finger superfamily	Interproscan
IPR044929 all species →	Homologous_superfamily	DNA/RNA non-specific endonuclease superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13966 all species →	ENDONUCLEASE RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000014 all species →	Molecular Function	single-stranded DNA endodeoxyribonuclease activity	Interproscan
GO:0004519 all species →	Molecular Function	endonuclease activity	Interproscan
GO:0004521 all species →	Molecular Function	RNA endonuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005743 all species →	Cellular Component	mitochondrial inner membrane	Interproscan
GO:0006309 all species →	Biological Process	apoptotic DNA fragmentation	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	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_007551-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_007551-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

103TPM > 0

7Conditions

81.8Max TPM

9.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.94	28.95
polyp at pH7 6	18	15	16.81	81.84
coral polyp · control treatment	16	14	8.59	31.99
coral polyp · oil and dispersant treatment	16	16	7.59	24.99
coral polyp · oil treatment	16	15	7.19	25.24
coral polyp · dispersant treatment	16	16	8.52	25.89
Polyp	10	9	3.94	7.04

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.64
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.28
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.15
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.60
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.60
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.61
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.87
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.62
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.76
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.84
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.56
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.54
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.78
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.98
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.60
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.53
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.43
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.69
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.01
SRR11359516	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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.99
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.09
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.65
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.02
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.36
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.59
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.24
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.65
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.26
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.33
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.73
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.48
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.37
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.01
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.51
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.24
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.45
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.87
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.31
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.89
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.72
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.49
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.30
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.22
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.49
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.41
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.21
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.83
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.46
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.20
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.