Gene detail

Detailed information of OS493_036808-T1 in Lophelia pertusa

Genomic Location: scaffold_385:73188...80020
NR annotation: KAJ7388580.1, Serine/threonine-protein kinase RIO2 [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
Q9BVS4	Serine/threonine-protein kinase RIO2 OS=Homo sapiens OX=9606 GN=RIOK2 PE=1 SV=2
Q9CQS5	Serine/threonine-protein kinase RIO2 OS=Mus musculus OX=10090 GN=Riok2 PE=1 SV=1
Q54T05	Serine/threonine-protein kinase rio2 OS=Dictyostelium discoideum OX=44689 GN=rio2 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005987 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01163 all species →	RIO1	RIO1 family	Family	Interproscan
PF09202 all species →	Rio2_N	Rio2, N-terminal	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015285 all species →	Domain	RIO2 kinase winged helix domain, N-terminal	Interproscan
IPR000687 all species →	Domain	RIO kinase	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR030484 all species →	Domain	Serine/threonine-protein kinase Rio2	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45852 all species →	SER/THR-PROTEIN KINASE RIO2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0030490 all species →	Biological Process	maturation of SSU-rRNA	Interproscan
GO:0030688 all species →	Cellular Component	preribosome, small subunit precursor	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	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
K07179	RIOK2; RIO kinase 2	EC:2.7.11.1	Ribosome biogenesis	ko03009	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_036808-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

25.6Max TPM

9.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.64	10.19
polyp at pH7 6	18	18	9.03	12.48
coral polyp · control treatment	16	16	12.40	22.48
coral polyp · oil and dispersant treatment	16	16	10.22	17.50
coral polyp · oil treatment	16	16	10.02	15.36
coral polyp · dispersant treatment	16	16	6.87	12.47
Polyp	10	10	10.99	25.56

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.88
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.48
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.31
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.11
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.66
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.11
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.04
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.55
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.57
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.35
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.20
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.72
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.68
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.48
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.10
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.83
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.73
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.07
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.99
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.88
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.61
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.84
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.92
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.50
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.38
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.35
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.94
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.92
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.22
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.14
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.04
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.85
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.13
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.36
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.86
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.74
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.47
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.55
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.95
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.41
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.74
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.41
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.70
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.47
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.38
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.25
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.96
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.71
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.81
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.35
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.74
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	25.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.32
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.87
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.51
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.51
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.18
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.00

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.