Gene detail

Detailed information of OS493_034864-T1 in Lophelia pertusa

Genomic Location: scaffold_301:286479...292289
NR annotation: KAJ7388936.1, Beclin-1 [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
F1RCP1	Beclin-1 OS=Danio rerio OX=7955 GN=becn1 PE=2 SV=3
Q6GP52	Beclin-1 OS=Xenopus laevis OX=8355 GN=becn1 PE=2 SV=1
Q9VCE1	Beclin-1-like protein OS=Drosophila melanogaster OX=7227 GN=Atg6 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005603 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04111 all species →	APG6	Apg6 BARA domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038274 all species →	Homologous_superfamily	Atg6/Beclin C-terminal domain superfamily	Interproscan
IPR007243 all species →	Family	Atg6/Beclin	Interproscan
IPR040455 all species →	Domain	Atg6, BARA domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12768 all species →	BECLIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000045 all species →	Biological Process	autophagosome assembly	Interproscan
GO:0000407 all species →	Cellular Component	phagophore assembly site	Interproscan
GO:0006914 all species →	Biological Process	autophagy	Interproscan
GO:0006995 all species →	Biological Process	cellular response to nitrogen starvation	Interproscan
GO:0034271 all species →	Cellular Component	phosphatidylinositol 3-kinase complex, class III, type I	Interproscan
GO:0034272 all species →	Cellular Component	phosphatidylinositol 3-kinase complex, class III, type II	Interproscan
GO:0045324 all species →	Biological Process	late endosome to vacuole 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_034864-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_034864-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

18.8Max TPM

9.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.61	10.83
polyp at pH7 6	18	18	9.26	16.85
coral polyp · control treatment	16	16	12.55	18.10
coral polyp · oil and dispersant treatment	16	16	8.87	13.05
coral polyp · oil treatment	16	16	12.93	18.85
coral polyp · dispersant treatment	16	16	5.67	10.16
Polyp	10	10	11.47	18.01

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.83
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.22
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.95
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.67
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.11
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.57
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.65
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.73
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.85
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.09
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.23
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.69
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.70
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.53
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.49
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.96
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.10
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.30
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.16
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.37
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.11
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.88
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.24
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.64
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.60
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.34
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.17
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.23
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.22
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.79
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.07
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.75
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.96
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.07
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.87
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.61
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.47
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.99
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.22
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.11
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.16
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.62
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.42
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.48
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.25
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.17
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.76
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.50
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.47
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.89
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.69
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.86
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.54

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.