Gene detail

Detailed information of OS493_038606-T1 in Lophelia pertusa

Genomic Location: scaffold_645:14454...20333
NR annotation: KAJ7375821.1, hypothetical protein OS493_038606 [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)	OG0004765 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12894 all species →	ANAPC4_WD40	Anaphase-promoting complex subunit 4 WD40 domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR045139 all species →	Family	Aladin	Interproscan
IPR024977 all species →	Domain	Anaphase-promoting complex subunit 4-like, WD40 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14494 all species →	ALADIN/ADRACALIN/AAAS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005643 all species →	Cellular Component	nuclear pore	Interproscan
GO:0006913 all species →	Biological Process	nucleocytoplasmic transport	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_038606-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_038606-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

101TPM > 0

7Conditions

17.1Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	6.11	13.08
polyp at pH7 6	18	16	7.14	17.12
coral polyp · control treatment	16	16	3.60	7.70
coral polyp · oil and dispersant treatment	16	15	2.35	10.05
coral polyp · oil treatment	16	16	3.58	6.99
coral polyp · dispersant treatment	16	15	2.31	5.68
Polyp	10	7	1.97	4.54

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.54
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.11
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.59
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.88
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.45
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.75
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.19
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.63
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.33
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.45
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.13
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.17
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.58
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.21
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.66
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.80
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.57
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.11
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.31
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.04
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.82
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.31
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.84
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.13
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.04
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.99
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.73
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.65
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.44
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.68
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.57
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.70
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.22
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.03
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.94
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.06
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.