Gene detail

Detailed information of OS493_019206-T1 in Lophelia pertusa

Genomic Location: scaffold_66:722736...733215
NR annotation: KAJ7331618.1, WD repeat-containing protein 70 [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)

UniProt accession	Description
Q32LB0	WD repeat-containing protein 70 OS=Bos taurus OX=9913 GN=WDR70 PE=2 SV=1
Q9NW82	WD repeat-containing protein 70 OS=Homo sapiens OX=9606 GN=WDR70 PE=1 SV=1
Q5EB92	WD repeat-containing protein 70 OS=Rattus norvegicus OX=10116 GN=Wdr70 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003864 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_019206-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR051858 all species →	Family	WD repeat-containing GAD-1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16017 all species →	GASTRULATION DEFECTIVE PROTEIN 1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0035861 all species →	Cellular Component	site of double-strand break	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_019206-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_019206-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

83TPM > 0

7Conditions

24.2Max TPM

3.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	10	2.68	8.12
polyp at pH7 6	18	10	2.63	9.60
coral polyp · control treatment	16	15	4.38	9.16
coral polyp · oil and dispersant treatment	16	13	3.86	9.77
coral polyp · oil treatment	16	13	4.19	11.75
coral polyp · dispersant treatment	16	12	2.53	6.88
Polyp	10	10	9.23	24.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.95
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.42
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.96
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.71
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.36
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
SRR11359510	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
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
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.60
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.88
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.24
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	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
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
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
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.16
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.56
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.25
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.44
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.93
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.80
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.49
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.79
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.53
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.24
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	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
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.75
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.11
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.47
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.78
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.46
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.51
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.88
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.21
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.64
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	24.19
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	13.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.66
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.98
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.76
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.13
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.86
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.41

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.