Gene detail

Detailed information of OS493_020968-T1 in Lophelia pertusa

Genomic Location: scaffold_79:597313...603672
NR annotation: KAJ7390948.1, autophagy protein 13 [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
Q08DY8	Autophagy-related protein 13 OS=Bos taurus OX=9913 GN=ATG13 PE=2 SV=1
Q7SYE0	Autophagy-related protein 13 OS=Danio rerio OX=7955 GN=atg13 PE=2 SV=1
A5A6N3	Autophagy-related protein 13 OS=Pan troglodytes OX=9598 GN=ATG13 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007584 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_020968-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR040182 all species →	Family	Autophagy-related protein 13	Interproscan
IPR036570 all species →	Homologous_superfamily	HORMA domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13430 all species →	UNCHARACTERIZED	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:0000423 all species →	Biological Process	mitophagy	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0034497 all species →	Biological Process	protein localization to phagophore assembly site	Interproscan
GO:0034727 all species →	Biological Process	piecemeal microautophagy of the nucleus	Interproscan
GO:1990316 all species →	Cellular Component	Atg1/ULK1 kinase complex	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
K08331	ATG13; autophagy-related protein 13	-	Mitochondrial biogenesis	ko03029	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_020968-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

109TPM > 0

7Conditions

24.3Max TPM

10.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.29	14.00
polyp at pH7 6	18	18	10.27	18.38
coral polyp · control treatment	16	16	14.39	24.26
coral polyp · oil and dispersant treatment	16	16	11.35	16.77
coral polyp · oil treatment	16	16	11.13	14.27
coral polyp · dispersant treatment	16	16	6.98	11.89
Polyp	10	9	9.64	15.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.69
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.31
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.21
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.74
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.54
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.01
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.99
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.92
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.78
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.83
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.90
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.38
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.83
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.99
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.56
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.38
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.18
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.63
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.55
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.09
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.60
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.79
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.42
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.99
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.17
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.32
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.42
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.90
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.78
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.56
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.73
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.57
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.45
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.66
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.28
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.90
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.28
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.90
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.39
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.98
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.64
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.31
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.97
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.61
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.38
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.84
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.74
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.71
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.41
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.77
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.70
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.22
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.68
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.72
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.30
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.32
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.13
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.64
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.05
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.97
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.31
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.81
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.23
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.18
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.67
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.89
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.88
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.01
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.