Gene detail

Detailed information of OS493_007552-T1 in Lophelia pertusa

Genomic Location: scaffold_16:3765157...3768138
NR annotation: KAJ7374446.1, hypothetical protein OS493_007552 [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)	OG0001645 (this species only) · gene tree & orthology

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
IPR020821 all species →	Domain	Extracellular Endonuclease, subunit A	Interproscan
IPR001604 all species →	Domain	DNA/RNA non-specific endonuclease	Interproscan
IPR044929 all species →	Homologous_superfamily	DNA/RNA non-specific endonuclease superfamily	Interproscan
IPR044925 all species →	Homologous_superfamily	His-Me finger 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_007552-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_007552-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

52.9Max TPM

16.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	22.29	39.37
polyp at pH7 6	18	18	24.48	36.98
coral polyp · control treatment	16	16	15.52	37.28
coral polyp · oil and dispersant treatment	16	14	16.61	52.92
coral polyp · oil treatment	16	16	19.70	48.61
coral polyp · dispersant treatment	16	16	9.77	24.69
Polyp	10	8	1.43	2.92

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	-	39.37
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.38
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.41
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.77
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.03
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.95
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.49
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.47
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.19
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.74
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.48
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.92
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.84
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.98
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.63
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.19
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.33
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.85
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.79
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.21
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.37
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.14
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.37
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.45
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.60
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.58
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.62
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.92
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.43
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.82
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.77
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.46
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.34
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.36
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.64
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.61
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.87
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.93
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.85
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.27
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.21
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.69
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.47
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.38
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.79
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.50
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.42
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.95
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.28
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.08
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.78
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.08
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.67
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.93
SRR23025713	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.