Gene detail

Detailed information of OS493_004666-T1 in Lophelia pertusa

Genomic Location: scaffold_9:3145540...3160244
NR annotation: KAJ7381068.1, hypothetical protein OS493_004666 [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
Q6GM53	Inhibitor of nuclear factor kappa-B kinase subunit alpha OS=Xenopus laevis OX=8355 GN=chuk PE=2 SV=1
Q28DZ1	Inhibitor of nuclear factor kappa-B kinase subunit alpha OS=Xenopus tropicalis OX=8364 GN=chuk PE=2 SV=1
Q4G3H4	Inhibitor of nuclear factor kappa-B kinase subunit alpha OS=Danio rerio OX=7955 GN=chuk PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004442 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR008271 all species →	Active_site	Serine/threonine-protein kinase, active site	Interproscan
IPR051180 all species →	Family	Inhibitor of nuclear factor kappa-B kinase	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22969 all species →	IKB KINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008384 all species →	Molecular Function	IkappaB kinase activity	Interproscan
GO:0008385 all species →	Cellular Component	IkappaB kinase complex	Interproscan
GO:0018105 all species →	Biological Process	peptidyl-serine phosphorylation	Interproscan
GO:0033209 all species →	Biological Process	tumor necrosis factor-mediated signaling pathway	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	Interproscan
GO:0051092 all species →	Biological Process	positive regulation of NF-kappaB transcription factor 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_004666-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_004666-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

109TPM > 0

7Conditions

48.2Max TPM

19.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.28	23.78
polyp at pH7 6	18	17	14.83	22.36
coral polyp · control treatment	16	16	26.79	48.24
coral polyp · oil and dispersant treatment	16	16	21.28	33.03
coral polyp · oil treatment	16	16	22.72	34.73
coral polyp · dispersant treatment	16	16	20.57	32.93
Polyp	10	10	13.96	19.09

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.78
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.26
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.04
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.74
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.55
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.77
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.36
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.05
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.33
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.38
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.44
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.60
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.33
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.32
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.22
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.15
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.76
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.92
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.67
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.79
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.29
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.50
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.35
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.19
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.03
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.17
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.19
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.56
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.29
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.28
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.73
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.87
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.87
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.07
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.86
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.84
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.93
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.51
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.70
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.23
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.09
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.32
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.56
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.10
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.80
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.64
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	19.09
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.34
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.56
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	16.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	15.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.63
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.43
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.09
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.58

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.