Gene detail

Detailed information of OS493_032539-T1 in Lophelia pertusa

Genomic Location: scaffold_244:78720...83672
NR annotation: KAJ7370364.1, CDK2-associated and cullin domain-containing protein 1 [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
Q8R0X2	CDK2-associated and cullin domain-containing protein 1 OS=Mus musculus OX=10090 GN=Cacul1 PE=2 SV=1
Q86Y37	CDK2-associated and cullin domain-containing protein 1 OS=Homo sapiens OX=9606 GN=CACUL1 PE=1 SV=1
Q5XI53	CDK2-associated and cullin domain-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Cacul1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008968 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00888 all species →	Cullin	Cullin family	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001373 all species →	Domain	Cullin, N-terminal	Interproscan
IPR016159 all species →	Homologous_superfamily	Cullin repeat-like-containing domain superfamily	Interproscan
IPR042652 all species →	Family	CDK2-associated and cullin domain-containing protein 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46636 all species →	CDK2-ASSOCIATED AND CULLIN DOMAIN-CONTAINING PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0031625 all species →	Molecular Function	ubiquitin protein ligase binding	Interproscan
GO:0000082 all species →	Biological Process	G1/S transition of mitotic cell cycle	Interproscan
GO:0019901 all species →	Molecular Function	protein kinase binding	Interproscan
GO:0045860 all species →	Biological Process	positive regulation of protein kinase activity	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_032539-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_032539-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

44.0Max TPM

18.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.90	32.13
polyp at pH7 6	18	18	20.46	27.59
coral polyp · control treatment	16	16	21.05	43.89
coral polyp · oil and dispersant treatment	16	16	15.41	23.26
coral polyp · oil treatment	16	16	19.75	31.73
coral polyp · dispersant treatment	16	16	11.55	21.86
Polyp	10	10	23.59	44.02

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.13
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.19
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.71
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.16
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.15
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.02
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.35
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.21
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.11
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.87
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.87
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.59
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.43
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.34
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.80
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.54
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.59
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.11
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.49
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.08
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.72
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.67
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.89
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.96
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.27
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.92
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.05
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.52
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.67
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.26
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.49
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.31
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.54
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.53
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.56
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.47
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.40
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.76
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.71
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.69
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.24
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.01
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.76
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.42
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.53
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.48
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.56
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.03
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.02
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.55
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.37
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.94
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.60
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.35
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.20
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.82
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.37
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	44.02
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	29.86
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	26.13
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	23.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.93
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.44
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.28
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.97

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.