Gene detail

Detailed information of XP_032219776.2 in Nematostella vectensis

Genomic Location: NC_064034.1:5868752...5875062
NR annotation: XP_032219776.2, ER degradation-enhancing alpha-mannosidase-like protein 1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032363885.2

TATCAAAAAAGAACTATCGATCAGACGCGAAGTAAACAACATCTTATGGTGGAAGATCAAGGACGACTCATGGGGACATGGGGACCCGAATGGCCATATACTTTAGGGCTTTCCCTTGTCTTTCTAGGATTAATAATTACAGCTCACAGTTGTCAAAGCAATCGTAGTGATTTTGATAGTAAATATCAGTATTTTAGTGAATCCGAAAGGCTGAAATCAAGAGAAGATGCAAGACGTATGTTCTACTTCGGATACGAGAGCTACATGCGATATGCCTTTCCTCATGATGAACTGGATCCAATACATTGTACCGGCAGAGGACCAGATCGTAAAAATCCAACTAATATTAACATCAATGATGTCCTGGGGGATTACTCATTGACGCTGGTGGAAGCCCTCGGAACCCTAGCTGTCATGGGAAATAGTACTGAATTCAAATTAGCTGTTCAGCGTGTTATAGATAATGTGCATTTTGATAGAAAGAGTACAGTTCAAGTCTTCGAAGCTAATATAAGAGTGCTTGGCTCATTATTGTCTGCTCATATGATAATAAAGGATCCTTTACAGCCATTTGGGGACATGAGTCcagatgattatgatgatgaactGTTGACCTTAGCACATGACCTTGCCAATAGGCTTGTTGATGCGTTTAATAAATCTCCTACTGGCATCCCATATCCTAGAGTTAATCTAACTTCAGGGGAAGCATTAAGAGACAGATCAGATACATGTTTAGCGGGAGCTGGCTCTCTTCTTCTCGAATTTGGGGTCCTCAGCAGGCTTCTAGGGGACCCATCCTTTGAAAACCTTGCAAGAAAAGCAGTTAACATGTTATGGGCCCAAAGGTCTGCATCTACTGGACTCTTTGGAAATGTTATAGATGTGAGGACAAAAGAATGGATTGGCAAAATGAGCGGCTTAGGCGCTGGTCTAGATTCATTTTATGAGTATTTGCTTAAGGGCTATATTCTATTTGGGGAAGTTGAAGACTTAAAGCGGTTTAATGACATCTACAAGCAACTTCATTTACATCTTAGGAAAGGCCGATTAAAATGCCTGGAGGGTTCTGGAGAAACACCTGTGTATGTCAACGTTAATATGAACACCGCGAAAATTGAGAACGCTTGGGTGGACTCGCTACACGCGTCATTTGCAGCGGTCCAGGTACTGAAAGGCGACATTAGCGAAGCCATTTGCACGCATGCGCTATTTTACCATATATGGAGGAAGTACCAGGCTCTTCCAGAGCGCTTTAACTGGCACCTGAAGCAGCCTGATGTATATTTCTATCCGTTGCGACCCGAACTGGCCGAGTCGACATATGTGCTCTATCAGGCAACCCATCACCCGTTCTATCTTCACGTCGGTCGAGAAATGCTGAGGGACCTTGAGACGCACGCGAGAGCAGAGTGCGGCTACGCCACAATACACAATGTGCTGGATAAATCCCAGGAGGATCGGATGGAAAGCTTCTTTTTGAGTGAGACGTGCAAGTACCTGTACCTGCTTTTCGATCACGAAAACCACGTCAACCAGGACGCTTCCAACTACATATTTAGTACTGAGGGTCACCTCTTTCGCCTGGACACCAGATTTAGGAAACGACCCTGGGATGTCAGCCCTGTCCGACGACTTCGACCGCGCCCTAAAAGTCAACTCATAAGCCGCGTTACCAAGCAACGAAATGACACCTGTGGGtgtGAAAGTATTGACGACTATGACCGGCCACTTCCTCTCGACGTGAAGTATATGTTGCAGCTAGAACGGGAAGTAGGACTCTATGACTGAGGCACTACAATAGAGATGCCGGCTTGACAACTGATGGAAACGATTAACAGAAGTAGTCAATGGGGCCATCGGTAATCCCTGCTTTATTACCAGAAGACAATGATGGGACACGAGcgaaaaggaagaaaataatcaaactttgtttgattgagATATTTATGCTGCATTTTATAACTGTTATTCAAAAACACTATttgtaaaatgaaataaaattgatattttgctTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q925U4	ER degradation-enhancing alpha-mannosidase-like protein 1 OS=Mus musculus OX=10090 GN=Edem1 PE=1 SV=1
Q92611	ER degradation-enhancing alpha-mannosidase-like protein 1 OS=Homo sapiens OX=9606 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
IPR044674 all species →	Family	ER degradation-enhancing alpha-mannosidase-like protein 1/2/3	Interproscan
IPR036026 all species →	Homologous_superfamily	Seven-hairpin glycosidases	Interproscan
IPR012341 all species →	Homologous_superfamily	Six-hairpin glycosidase-like superfamily	Interproscan
IPR001382 all species →	Family	Glycoside hydrolase family 47	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: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
GO:0005975 all species →	Biological Process	carbohydrate metabolic 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K10084	EDEM1; ER degradation enhancer, mannosidase alpha-like 1	-	Lectins	ko04091	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of XP_032219776.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

44TPM > 0

16Conditions

34.5Max TPM

19.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	20.14	24.23
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	17.84	21.60
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	22.92	26.42
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	20.05	23.45
whole 6 week old aboral regenerate · regenerate uncut	3	3	20.66	25.21
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	8.85	14.60
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	17.86	24.75
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	21.82	24.82
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	23.06	26.70
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	19.20	22.88
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	24.99	28.27
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	13.35	21.82
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	18.72	20.44
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	15.96	25.54
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	24.17	27.54
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	21.14	34.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	24.23
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	22.02
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	14.17
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	21.60
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	16.38
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	15.55
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	26.42
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	22.32
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	20.03
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	23.45
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	18.65
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	18.04
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	25.21
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	18.99
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	17.77
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	14.60
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	11.95
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	24.75
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	20.72
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	8.13
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	24.82
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	23.15
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	17.49
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	26.70
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	23.46
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	19.01
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	22.88
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	18.68
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	16.04
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	28.27
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	24.59
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	22.10
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	21.82
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	18.22
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	20.44
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	19.07
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	16.66
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	25.54
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	22.34
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	27.54
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	23.72
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	21.24
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	34.46
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	28.96
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.