Gene detail

Detailed information of OS493_002284-T1 in Lophelia pertusa

Genomic Location: scaffold_4:7978599...7979902
NR annotation: KAJ7375509.1, hypothetical protein OS493_002284 [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)	OG0006668 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04851 all species →	ResIII	Type III restriction enzyme, res subunit	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006935 all species →	Domain	Helicase/UvrB, N-terminal	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR050742 all species →	Family	Helicase and Restriction-Modification Enzyme	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47396 all species →	TYPE I RESTRICTION ENZYME ECOKI R PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase 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_002284-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_002284-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

98TPM > 0

7Conditions

23.9Max TPM

5.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	2.99	9.85
polyp at pH7 6	18	12	4.82	10.49
coral polyp · control treatment	16	16	6.47	23.95
coral polyp · oil and dispersant treatment	16	16	6.39	17.95
coral polyp · oil treatment	16	16	5.91	18.43
coral polyp · dispersant treatment	16	16	5.51	21.20
Polyp	10	10	6.15	15.20

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.85
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.38
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.15
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.04
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.48
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.23
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.48
SRR11359518	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
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.49
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.60
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.82
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.97
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.38
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.92
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.77
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
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.95
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.29
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.58
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.73
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.87
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.20
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.97
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.95
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.92
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.31
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.41
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.03
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.92
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.19
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.20
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.44
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.75
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.04
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.95
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	12.37
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.04
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.94
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.48
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.29

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.