Gene detail

Detailed information of OS493_003457-T1 in Lophelia pertusa

Genomic Location: scaffold_7:1726304...1731292
NR annotation: KAJ7393796.1, WD repeat-containing protein 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
Q920I9	WD repeat-containing protein 7 OS=Mus musculus OX=10090 GN=Wdr7 PE=1 SV=3
Q9ERH3	WD repeat-containing protein 7 OS=Rattus norvegicus OX=10116 GN=Wdr7 PE=1 SV=1
Q9Y4E6	WD repeat-containing protein 7 OS=Homo sapiens OX=9606 GN=WDR7 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003336 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · 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
IPR049916 all species →	Family	WD repeat-containing protein 7/72	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR44099 all species →	RABCONNECTIN-3B, ISOFORM A	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
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_003457-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_003457-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

110TPM > 0

7Conditions

44.3Max TPM

24.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	23.12	34.15
polyp at pH7 6	18	18	23.22	36.84
coral polyp · control treatment	16	16	30.64	44.25
coral polyp · oil and dispersant treatment	16	16	24.77	32.78
coral polyp · oil treatment	16	16	29.42	39.47
coral polyp · dispersant treatment	16	16	16.56	25.43
Polyp	10	10	22.59	32.96

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.15
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.33
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.38
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.23
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.63
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.91
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.17
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.66
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.20
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.08
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.44
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.32
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.84
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.47
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.26
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.01
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.43
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.53
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.54
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.10
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.56
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.50
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.48
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.52
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.25
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.75
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.58
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.36
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.47
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.21
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.14
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.72
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.73
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.89
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.08
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.23
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.89
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.31
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.43
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.03
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.77
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.58
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.33
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.33
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.47
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.70
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.23
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.62
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.56
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.59
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.45
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.68
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.22
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.12
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.84
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.54
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.04
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.66
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.64
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.96
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	28.11
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	27.37
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	23.39
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	21.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	19.61
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.24

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.