Gene detail

Detailed information of OS493_007874-T1 in Lophelia pertusa

Genomic Location: scaffold_17:4037066...4045426
NR annotation: KAJ7365222.1, Ganglioside GM2 activator [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

No KEGG orthology assignment for OS493_007874-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_007874-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

1,321.7Max TPM

544.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	661.60	1,197.49
polyp at pH7 6	18	18	689.59	1,275.64
coral polyp · control treatment	16	16	425.34	934.28
coral polyp · oil and dispersant treatment	16	16	392.20	966.08
coral polyp · oil treatment	16	16	634.25	1,255.05
coral polyp · dispersant treatment	16	16	382.19	911.36
Polyp	10	10	624.18	1,321.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,197.49
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,181.84
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	797.76
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	786.91
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	763.55
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	714.23
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	647.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	644.54
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	603.69
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	603.66
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	594.62
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	592.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	506.22
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	502.74
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	466.91
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	460.51
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	424.71
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	419.20
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,275.64
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,271.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,137.87
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,100.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	955.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	952.23
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	691.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	690.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	601.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	588.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	523.32
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	511.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	490.93
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	487.13
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	381.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	376.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	193.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	182.26
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	934.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	709.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	657.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	635.31
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	554.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	425.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	414.64
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	396.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	382.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	338.20
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	337.51
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	335.49
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	203.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	179.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	157.73
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	144.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	966.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	808.19
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	722.91
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	665.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	473.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	411.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	355.23
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	354.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	288.53
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	271.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	258.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	258.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	179.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.77
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.37
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,255.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,133.35
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,050.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,003.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	762.83
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	751.74
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	720.45
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	660.21
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	647.45
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	535.63
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	447.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	430.63
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	319.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	167.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	161.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.38
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	911.36
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	892.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	616.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	602.46
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	488.19
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	442.34
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	318.63
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	317.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	311.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	287.30
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	275.14
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	217.44
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	202.08
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	129.34
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.80
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1,321.66
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1,223.80
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1,203.23
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	902.71
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	646.72
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	448.97
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	234.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	107.98
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	100.31
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	52.37

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.