Gene detail

Detailed information of OS493_002503-T1 in Lophelia pertusa

Genomic Location: scaffold_5:3199867...3205152
NR annotation: KAJ7365785.1, ML domain [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001642 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02221 all species →	E1_DerP2_DerF2	ML domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036846 all species →	Homologous_superfamily	GM2-AP, lipid-recognition domain superfamily	Interproscan
IPR028996 all species →	Family	Ganglioside GM2 activator	Interproscan
IPR003172 all species →	Domain	MD-2-related lipid-recognition domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17357 all species →	GM2 GANGLIOSIDE ACTIVATOR PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005319 all species →	Molecular Function	lipid transporter activity	Interproscan
GO:0006689 all species →	Biological Process	ganglioside catabolic process	Interproscan
GO:0006869 all species →	Biological Process	lipid transport	Interproscan
GO:0008047 all species →	Molecular Function	enzyme activator activity	Interproscan
GO:0009898 all species →	Cellular Component	cytoplasmic side of plasma 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12383	GM2A; ganglioside GM2 activator	-	Exosome	ko04147	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_002503-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

3,243.7Max TPM

850.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	897.87	1,735.24
polyp at pH7 6	18	18	1,107.62	2,682.87
coral polyp · control treatment	16	16	720.92	1,306.46
coral polyp · oil and dispersant treatment	16	16	651.90	1,844.73
coral polyp · oil treatment	16	16	824.79	2,010.47
coral polyp · dispersant treatment	16	16	565.94	946.58
Polyp	10	10	1,324.84	3,243.74

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,735.24
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,719.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,711.65
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,676.87
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,098.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,018.94
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	837.99
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	830.80
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	786.04
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	780.76
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	596.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	581.54
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	557.01
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	532.96
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	451.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	445.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	401.89
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	399.13
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,682.87
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,674.95
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,937.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,887.66
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,603.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,603.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,290.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,273.98
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	712.13
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	701.96
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	695.23
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	673.40
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	497.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	494.74
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	365.37
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	362.30
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	244.73
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	234.51
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,306.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,058.63
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,055.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,038.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,006.58
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	974.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	973.85
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	706.64
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	596.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	552.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	488.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	477.17
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	467.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	403.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	216.65
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	212.04
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,844.73
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,651.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,422.06
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	828.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	719.87
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	657.94
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	539.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	407.44
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	381.87
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	364.44
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	361.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	336.15
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	335.18
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	273.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	173.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,010.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,758.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,632.19
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,445.26
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,119.39
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	911.79
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	730.75
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	569.94
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	491.76
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	467.21
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	454.80
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	421.06
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	371.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	333.84
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	245.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	232.90
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	946.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	891.54
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	835.91
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	813.92
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	720.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	696.14
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	678.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	670.30
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	568.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	547.12
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	393.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	367.18
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	352.50
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	247.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	201.12
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.18
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3,243.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2,540.82
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1,931.08
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1,448.48
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1,126.55
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1,093.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	730.28
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	411.50
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	380.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	341.11

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.