Gene detail

Detailed information of OS493_003792-T1 in Lophelia pertusa

Genomic Location: scaffold_7:6005723...6009808
NR annotation: KAJ7394114.1, WD repeat-containing protein 61 [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
Q32LN7	Superkiller complex protein 8 OS=Bos taurus OX=9913 GN=SKIC8 PE=2 SV=1
Q9GZS3	Superkiller complex protein 8 OS=Homo sapiens OX=9606 GN=SKIC8 PE=1 SV=1
Q9ERF3	Superkiller complex protein 8 OS=Mus musculus OX=10090 GN=Skic8 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007656 (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
IPR020472 all species →	Repeat	G-protein beta WD-40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR051510 all species →	Family	Superkiller complex protein 8	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR44090 all species →	WD REPEAT-CONTAINING PROTEIN 61	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0016593 all species →	Cellular Component	Cdc73/Paf1 complex	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12602	WDR61, REC14, SKI8; WD repeat-containing protein 61	-	Messenger RNA biogenesis	ko03019	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_003792-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

175.4Max TPM

56.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	61.34	82.95
polyp at pH7 6	18	18	74.16	103.43
coral polyp · control treatment	16	16	48.27	84.50
coral polyp · oil and dispersant treatment	16	16	39.68	115.72
coral polyp · oil treatment	16	16	48.26	64.36
coral polyp · dispersant treatment	16	16	33.97	63.67
Polyp	10	10	104.40	175.43

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.95
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.17
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.11
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.97
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.31
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.79
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.98
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.01
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.51
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.93
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.77
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	103.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.78
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	80.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.38
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.98
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.72
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.14
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.55
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.20
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.48
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.66
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.15
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.86
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.72
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.39
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	115.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.68
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.36
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.54
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.71
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.32
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.85
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.24
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.67
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.46
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.36
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.36
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.97
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.09
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.92
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.25
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.74
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.27
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.70
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.82
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.84
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.12
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.37
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.81
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	175.43
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	158.72
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	142.89
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	118.34
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	102.74
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	94.13
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	80.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	70.94
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	61.81
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	38.23

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.