Gene detail

Detailed information of OS493_015004-T1 in Lophelia pertusa

Genomic Location: scaffold_43:1997132...2007096
NR annotation: KAJ7392058.1, Cyclin Y [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
Q08CI4	Cyclin-Y-like protein 1 OS=Danio rerio OX=7955 GN=ccnyl1 PE=2 SV=1
Q6NRF4	Cyclin-Y-like protein 1-B OS=Xenopus laevis OX=8355 GN=ccnyl1-b PE=2 SV=1
Q28EL0	Cyclin-Y-like protein 1 OS=Xenopus tropicalis OX=8364 GN=ccnyl1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006987 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00134 all species →	Cyclin_N	Cyclin, N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036915 all species →	Homologous_superfamily	Cyclin-like superfamily	Interproscan
IPR013763 all species →	Domain	Cyclin-like domain	Interproscan
IPR006671 all species →	Domain	Cyclin, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14248 all species →	CYCLIN Y, ISOFORM A	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0045859 all species →	Biological Process	regulation of protein kinase activity	Interproscan
GO:0060828 all species →	Biological Process	regulation of canonical Wnt signaling pathway	Interproscan
GO:0061575 all species →	Molecular Function	cyclin-dependent protein serine/threonine kinase activator 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_015004-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_015004-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

43.5Max TPM

22.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.45	33.71
polyp at pH7 6	18	18	19.94	27.16
coral polyp · control treatment	16	16	26.95	43.52
coral polyp · oil and dispersant treatment	16	16	28.61	41.76
coral polyp · oil treatment	16	16	24.86	36.50
coral polyp · dispersant treatment	16	16	17.42	28.28
Polyp	10	10	15.53	27.32

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.71
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.36
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.70
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.18
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.19
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.94
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.78
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.72
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.63
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.58
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.07
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.63
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.16
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.42
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.87
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.99
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.51
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.73
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.52
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.36
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.65
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.55
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.35
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.60
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.09
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.52
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.59
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.18
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.65
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.44
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.58
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.39
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.22
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.20
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.76
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.28
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.14
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.76
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.65
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.63
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.57
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.28
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.50
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.73
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.34
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.84
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.24
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.65
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.39
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.54
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.76
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.33
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.28
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.16
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.14
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.99
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.83
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.33
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.50
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.26
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.78
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	27.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	18.05
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.94
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.73
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.34
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.48

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.