Gene detail

Detailed information of OS493_028303-T1 in Lophelia pertusa

Genomic Location: scaffold_162:58211...61368
NR annotation: KAJ7326047.1, ER degradation-enhancing alpha-mannosidase-like protein 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
Q92611	ER degradation-enhancing alpha-mannosidase-like protein 1 OS=Homo sapiens OX=9606 GN=EDEM1 PE=1 SV=1
Q925U4	ER degradation-enhancing alpha-mannosidase-like protein 1 OS=Mus musculus OX=10090 GN=Edem1 PE=1 SV=1
O94726	ER degradation-enhancing alpha-mannosidase-like protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=mnl1 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004477 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01532 all species →	Glyco_hydro_47	Glycosyl hydrolase family 47	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012341 all species →	Homologous_superfamily	Six-hairpin glycosidase-like superfamily	Interproscan
IPR044674 all species →	Family	ER degradation-enhancing alpha-mannosidase-like protein 1/2/3	Interproscan
IPR001382 all species →	Family	Glycoside hydrolase family 47	Interproscan
IPR036026 all species →	Homologous_superfamily	Seven-hairpin glycosidases	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45679 all species →	ER DEGRADATION-ENHANCING ALPHA-MANNOSIDASE-LIKE PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0004571 all species →	Molecular Function	mannosyl-oligosaccharide 1,2-alpha-mannosidase activity	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:1904380 all species →	Biological Process	endoplasmic reticulum mannose trimming	Interproscan
GO:1904382 all species →	Biological Process	mannose trimming involved in glycoprotein ERAD pathway	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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_028303-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_028303-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

102TPM > 0

7Conditions

41.0Max TPM

6.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	5.14	11.48
polyp at pH7 6	18	15	6.50	12.83
coral polyp · control treatment	16	16	8.05	23.71
coral polyp · oil and dispersant treatment	16	16	9.99	40.98
coral polyp · oil treatment	16	16	7.49	12.19
coral polyp · dispersant treatment	16	16	6.18	11.14
Polyp	10	9	3.00	6.02

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	-	11.48
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.22
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.26
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.51
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.15
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.35
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.69
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.83
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.25
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.85
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.50
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.51
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.45
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.64
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.21
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.44
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.40
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.11
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.78
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.98
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.92
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.87
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.46
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.48
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.33
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.30
SRR16705994	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	4.70
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.95
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.19
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.28
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.05
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.76
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.46
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.74
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.72
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.14
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.17
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.84
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.41
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.49
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.10
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.69
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.55
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.12
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.02
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.54
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.30
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.66
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.56
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.85
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.69
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.63
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.