Gene detail

Detailed information of OS493_028195-T1 in Lophelia pertusa

Genomic Location: scaffold_160:388391...390811
NR annotation: KAJ7371033.1, Kelch-like member 7 [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
Q6NL02	F-box/kelch-repeat protein At5g39560 OS=Arabidopsis thaliana OX=3702 GN=At5g39560 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000047 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01344 all species →	Kelch_1	Kelch motif	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015915 all species →	Homologous_superfamily	Kelch-type beta propeller	Interproscan
IPR051746 all species →	Family	Kelch domain-containing protein 8	Interproscan
IPR006652 all species →	Repeat	Kelch repeat type 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46260 all species →	RING-TYPE DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	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_028195-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_028195-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

11.6Max TPM

2.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	2.50	6.82
polyp at pH7 6	18	13	1.45	4.71
coral polyp · control treatment	16	16	2.92	5.03
coral polyp · oil and dispersant treatment	16	14	3.91	11.64
coral polyp · oil treatment	16	16	2.60	5.12
coral polyp · dispersant treatment	16	15	2.00	4.76
Polyp	10	9	2.58	10.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.82
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.43
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.93
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.92
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.37
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.91
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.41
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
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.22
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.51
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.34
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.16
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.79
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.45
SRR11359501	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
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	5.03
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.82
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.52
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.20
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.64
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.88
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.45
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.78
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.67
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.62
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.99
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.50
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.36
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.19
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.62
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.27
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.79
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.27
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.48
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.82
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.73
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.