Gene detail

Detailed information of OS493_007971-T1 in Lophelia pertusa

Genomic Location: scaffold_18:2319609...2321285
NR annotation: KAJ7337814.1, Nuclear receptor coactivator 4 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009949 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12489 all species →	ARA70	Nuclear coactivator	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022174 all species →	Domain	Nuclear coactivator	Interproscan
IPR039947 all species →	Family	Nuclear receptor coactivator 4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17085 all species →	NUCLEAR RECEPTOR COACTIVATOR 4	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003713 all species →	Molecular Function	transcription coactivator activity	Interproscan
GO:0006879 all species →	Biological Process	intracellular iron ion homeostasis	Interproscan
GO:0009725 all species →	Biological Process	response to hormone	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
K09289	NCOA4, PTC3; nuclear receptor coactivator 4	-	Thyroid cancer	ko05216	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_007971-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

49.1Max TPM

17.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.06	17.82
polyp at pH7 6	18	18	13.42	19.00
coral polyp · control treatment	16	16	19.48	40.50
coral polyp · oil and dispersant treatment	16	16	25.39	41.26
coral polyp · oil treatment	16	16	14.65	27.97
coral polyp · dispersant treatment	16	16	26.58	49.06
Polyp	10	10	5.61	9.08

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	-	17.82
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.14
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.93
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.52
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.78
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.31
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.20
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.90
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.53
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.51
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.93
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.31
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.97
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.73
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.45
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.48
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.10
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.66
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.61
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.12
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.32
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.50
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.90
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.89
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.36
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.07
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.63
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.96
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.35
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.31
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.28
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.26
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.05
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.49
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.10
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.30
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.23
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.89
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.79
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.42
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.89
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.97
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.60
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.94
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.58
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.26
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.27
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.72
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.97
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.66
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.53
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.07
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.78
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.28
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.66
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.30
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.58
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.52
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.08
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.68
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.40
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.21
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.17

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.