Gene detail

Detailed information of OS493_020129-T1 in Lophelia pertusa

Genomic Location: scaffold_73:893280...911020
NR annotation: KAJ7391104.1, Protein Aster-B [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
Q3KR37	Protein Aster-B OS=Homo sapiens OX=9606 GN=GRAMD1B PE=1 SV=1
Q80TI0	Protein Aster-B OS=Mus musculus OX=10090 GN=Gramd1b PE=1 SV=2
Q8VEF1	Protein Aster-A OS=Mus musculus OX=10090 GN=Gramd1a PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001069 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02893 all species →	GRAM	GRAM domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004182 all species →	Domain	GRAM domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR051482 all species →	Family	Cholesterol transport domain-containing protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23319 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0032366 all species →	Biological Process	intracellular sterol transport	Interproscan
GO:0032934 all species →	Molecular Function	sterol binding	Interproscan
GO:0120015 all species →	Molecular Function	sterol transfer activity	Interproscan
GO:0140268 all species →	Cellular Component	endoplasmic reticulum-plasma membrane contact site	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_020129-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_020129-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

109TPM > 0

7Conditions

53.0Max TPM

13.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.95	18.79
polyp at pH7 6	18	17	11.89	17.74
coral polyp · control treatment	16	16	16.68	49.91
coral polyp · oil and dispersant treatment	16	16	17.24	52.96
coral polyp · oil treatment	16	16	14.99	26.04
coral polyp · dispersant treatment	16	16	12.32	21.12
Polyp	10	10	6.28	10.92

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.64
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.39
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.24
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.62
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.40
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.74
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.15
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.11
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.36
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.29
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.92
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.07
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.19
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.91
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.18
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.98
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.94
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.72
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.42
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.96
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.84
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.29
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.09
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.20
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.91
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.81
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.37
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.48
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.04
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.57
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.38
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.37
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.89
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.13
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.12
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.23
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.52
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.54
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.35
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.12
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.69
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.60
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.42
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.89
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.26
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.21
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.29
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.23
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.44
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.92
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.85
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.07
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.39

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.