Gene detail

Detailed information of OS493_017885-T1 in Lophelia pertusa

Genomic Location: scaffold_58:550306...552241
NR annotation: KAJ7372614.1, F-box/WD repeat-containing protein 10 [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
Q5XX13	F-box/WD repeat-containing protein 10 OS=Homo sapiens OX=9606 GN=FBXW10 PE=1 SV=2
O95170	F-box and WD repeat domain containing protein 10B OS=Homo sapiens OX=9606 GN=FBXW10B PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006510 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_017885-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR051075 all species →	Family	SCF complex subunit WD repeat-containing protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19872 all species →	UBIQUITIN LIGASE SPECIFICITY FACTOR/HREP PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_017885-T1. This gene does have a gene model — the search simply returned no hit.

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_017885-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_017885-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

40.8Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	2.43	5.55
polyp at pH7 6	18	17	2.91	5.73
coral polyp · control treatment	16	16	5.52	25.05
coral polyp · oil and dispersant treatment	16	16	6.59	40.85
coral polyp · oil treatment	16	16	4.17	8.84
coral polyp · dispersant treatment	16	15	4.66	8.32
Polyp	10	10	2.08	4.53

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.69
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.43
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.05
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.91
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.25
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.78
SRR11359495	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
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.73
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.55
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.58
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.91
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.82
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.45
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.23
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.93
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.22
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.05
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.32
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.74
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.01
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.59
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.28
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.30
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.21
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.09
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.16
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.14
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.89
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.24
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.06
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.01
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.02
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.14
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.78
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.32
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.40
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.93
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.66
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.37
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.12
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.02
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.66
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.09
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.30
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.20
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.10
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.91
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.89

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.