Gene detail

Detailed information of OS493_021512-T1 in Lophelia pertusa

Genomic Location: scaffold_83:304368...305962
NR annotation: KAJ7358736.1, hypothetical protein OS493_021512 [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
P35574	Glycogen debranching enzyme OS=Oryctolagus cuniculus OX=9986 GN=AGL PE=1 SV=1
Q2PQH8	Glycogen debranching enzyme OS=Canis lupus familiaris OX=9615 GN=AGL PE=2 SV=1
A8BQB4	Glycogen debranching enzyme OS=Equus caballus OX=9796 GN=AGL PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003738 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06202 all species →	GDE_C	Amylo-alpha-1,6-glucosidase	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032790 all species →	Domain	Glycogen debranching enzyme, C-terminal	Interproscan
IPR010401 all species →	Family	Glycogen debranching enzyme	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10569 all species →	GLYCOGEN DEBRANCHING ENZYME	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004134 all species →	Molecular Function	4-alpha-glucanotransferase activity	Interproscan
GO:0004135 all species →	Molecular Function	amylo-alpha-1,6-glucosidase activity	Interproscan
GO:0005980 all species →	Biological Process	glycogen catabolic process	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_021512-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_021512-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

106TPM > 0

7Conditions

33.1Max TPM

12.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.23	19.22
polyp at pH7 6	18	16	10.27	15.80
coral polyp · control treatment	16	16	18.54	29.24
coral polyp · oil and dispersant treatment	16	16	11.52	21.79
coral polyp · oil treatment	16	16	14.90	24.31
coral polyp · dispersant treatment	16	16	13.09	33.10
Polyp	10	8	4.45	10.91

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.22
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.12
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.14
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.85
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.21
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.44
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.61
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.99
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.22
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.61
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.28
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.11
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.21
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.99
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.62
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.08
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.96
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359524	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
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.81
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.75
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.18
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.75
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.48
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.32
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.37
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.22
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.67
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.27
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.20
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.01
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.04
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.27
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.11
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.23
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.59
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.37
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.87
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.74
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.66
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.33
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.71
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.96
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.96
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.91
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.81
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.59
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.94
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.97
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.92
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.74
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.36
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.10
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.75
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.16
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.13
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.42
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.16
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.67
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.65
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.34
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.91
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.96
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.05
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.87
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.63
SRR7746667	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.