Gene detail

Detailed information of OS493_040288-T1 in Lophelia pertusa

Genomic Location: scaffold_1999:45...8229
NR annotation: KAJ7388029.1, hypothetical protein OS493_040288, partial [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
Q9EPN1	Neurobeachin OS=Mus musculus OX=10090 GN=Nbea PE=1 SV=1
Q8NFP9	Neurobeachin OS=Homo sapiens OX=9606 GN=NBEA PE=1 SV=3
Q9ESE1	Lipopolysaccharide-responsive and beige-like anchor protein OS=Mus musculus OX=10090 GN=Lrba PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002584 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20426 all species →	NBCH_WD40	Neurobeachin beta propeller domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR046851 all species →	Domain	Neurobeachin, beta-propeller domain	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR050865 all species →	Family	BEACH Domain-Containing	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13743 all species →	BEIGE/BEACH-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0008104 all species →	Biological Process	protein localization	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0019901 all species →	Molecular Function	protein kinase binding	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_040288-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_040288-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

74TPM > 0

7Conditions

13.6Max TPM

3.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.84	7.40
polyp at pH7 6	18	13	3.51	11.64
coral polyp · control treatment	16	8	3.81	13.55
coral polyp · oil and dispersant treatment	16	8	3.48	11.02
coral polyp · oil treatment	16	10	4.56	11.82
coral polyp · dispersant treatment	16	11	2.38	9.06
Polyp	10	8	3.53	8.60

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.89
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.64
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.25
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.24
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.74
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.69
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.33
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.84
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.76
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.58
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.50
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.10
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.77
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.30
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.98
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.91
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.82
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.05
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.06
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.94
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.01
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.41
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.20
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.60
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.63
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.87
SRR23025713	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.