Gene detail

Detailed information of OS493_014982-T1 in Lophelia pertusa

Genomic Location: scaffold_43:1530080...1530900
NR annotation: KAJ7392043.1, negative regulation of nuclease [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)	OG0008759 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01149 all species →	Fapy_DNA_glyco	Formamidopyrimidine-DNA glycosylase N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035937 all species →	Homologous_superfamily	MutM-like, N-terminal	Interproscan
IPR012319 all species →	Domain	Formamidopyrimidine-DNA glycosylase, catalytic domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22993 all species →	FORMAMIDOPYRIMIDINE-DNA GLYCOSYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003906 all species →	Molecular Function	DNA-(apurinic or apyrimidinic site) endonuclease activity	Interproscan
GO:0006284 all species →	Biological Process	base-excision repair	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0019104 all species →	Molecular Function	DNA N-glycosylase activity	Interproscan
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_014982-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_014982-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

77TPM > 0

7Conditions

7.1Max TPM

1.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	8	0.59	2.07
polyp at pH7 6	18	6	0.58	2.69
coral polyp · control treatment	16	15	2.04	7.09
coral polyp · oil and dispersant treatment	16	13	1.30	5.83
coral polyp · oil treatment	16	14	1.90	3.88
coral polyp · dispersant treatment	16	14	1.74	4.36
Polyp	10	7	1.04	2.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.48
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.39
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.11
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.97
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
SRR11359498	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
SRR11359509	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
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.63
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.65
SRR11359500	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
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
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.10
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.96
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.16
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.85
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.04
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.90
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.79
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.64
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.56
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.88
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.27
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.12
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.97
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.61
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.56
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.56
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.61
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.13
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.93
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
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	-	2.85
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.95
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.34
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.89
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.70
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	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.