Gene detail

Detailed information of OS493_029117-T1 in Lophelia pertusa

Genomic Location: scaffold_174:338889...346398
NR annotation: KAJ7325691.1, hypothetical protein OS493_029117 [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
Q9W4E2	Neurobeachin OS=Drosophila melanogaster OX=7227 GN=rg PE=1 SV=4
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)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06469 all species →	DUF1088	Neurobeachin-like, DUF1088	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050865 all species →	Family	BEACH Domain-Containing	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR010508 all species →	Domain	Neurobeachin-like, DUF1088	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
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_029117-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_029117-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

108TPM > 0

7Conditions

32.5Max TPM

13.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.95	17.57
polyp at pH7 6	18	18	10.46	15.04
coral polyp · control treatment	16	16	19.08	32.45
coral polyp · oil and dispersant treatment	16	16	18.19	26.65
coral polyp · oil treatment	16	16	15.77	23.09
coral polyp · dispersant treatment	16	15	14.69	22.62
Polyp	10	9	4.04	7.95

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	-	17.57
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.25
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.51
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.90
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.84
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.05
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.76
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.70
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.90
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.22
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.90
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.84
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.22
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.47
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.93
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.51
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.43
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.80
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.97
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.39
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.91
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.33
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.22
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.14
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.45
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.31
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.83
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.00
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.83
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.39
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.90
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.20
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.63
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.03
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.53
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.64
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.65
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.37
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.25
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.15
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.08
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.28
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.03
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.33
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.17
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.94
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.67
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.13
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.86
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.09
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.42
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.58
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.42
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.80
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.45
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.68
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.62
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.37
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.72
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.13
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.01
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.05
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.93
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.95
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.98
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.42
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.17
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.38
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.82
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.80
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.73
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.