Gene detail

Detailed information of OS493_016213-T1 in Lophelia pertusa

Genomic Location: scaffold_49:1879279...1889381
NR annotation: KAJ7391916.1, WD repeat-containing protein 24 [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
Q7ZVL2	GATOR2 complex protein WDR24 OS=Danio rerio OX=7955 GN=wdr24 PE=2 SV=1
Q7ZX22	GATOR2 complex protein WDR24 OS=Xenopus laevis OX=8355 GN=wdr24 PE=2 SV=1
Q8CFJ9	GATOR2 complex protein WDR24 OS=Mus musculus OX=10090 GN=Wdr24 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005529 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR037590 all species →	Family	GATOR2 complex protein WDR24	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46200 all species →	GATOR COMPLEX PROTEIN WDR24	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005774 all species →	Cellular Component	vacuolar membrane	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016239 all species →	Biological Process	positive regulation of macroautophagy	Interproscan
GO:0032008 all species →	Biological Process	positive regulation of TOR signaling	Interproscan
GO:0034198 all species →	Biological Process	cellular response to amino acid starvation	Interproscan
GO:0061700 all species →	Cellular Component	GATOR2 complex	Interproscan
GO:1904263 all species →	Biological Process	positive regulation of TORC1 signaling	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_016213-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_016213-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

109TPM > 0

7Conditions

30.5Max TPM

12.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.04	30.10
polyp at pH7 6	18	17	13.82	23.47
coral polyp · control treatment	16	16	14.67	30.48
coral polyp · oil and dispersant treatment	16	16	9.58	23.25
coral polyp · oil treatment	16	16	13.84	19.22
coral polyp · dispersant treatment	16	16	10.57	20.42
Polyp	10	10	9.26	22.63

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.10
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.94
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.01
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.90
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.43
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.40
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.44
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.77
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.47
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.21
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.60
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.48
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.70
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.62
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.90
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.53
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.55
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.32
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.48
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.65
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.49
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.97
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.70
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.58
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.44
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.99
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.02
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.66
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.55
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.04
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.91
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.36
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.09
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.06
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.80
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.56
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.37
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.37
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.33
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.28
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.28
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.82
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.55
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.31
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.75
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.21
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.41
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.55
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.53
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.42
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.48
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.97
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.41
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.86
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.81
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.67
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.58
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.39
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.42
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	19.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.37
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.17
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.69
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.06
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.09

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.