Gene detail

Detailed information of OS493_036902-T1 in Lophelia pertusa

Genomic Location: scaffold_390:86854...107206
NR annotation: KAJ7318911.1, Rho GTPase activating protein [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
Q8K0Q5	Rho GTPase-activating protein 18 OS=Mus musculus OX=10090 GN=Arhgap18 PE=1 SV=1
Q8N392	Rho GTPase-activating protein 18 OS=Homo sapiens OX=9606 GN=ARHGAP18 PE=1 SV=3
Q9P2N2	Rho GTPase-activating protein 28 OS=Homo sapiens OX=9606 GN=ARHGAP28 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002558 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_036902-T1 in Lophelia pertusa.

InterPro

No InterPro signature was recorded for OS493_036902-T1 in Lophelia pertusa.

PANTHER

PANTHER term	Description	Source
PTHR14963 all species →	RHO GTPASE ACTIVATING PROTEIN 18,19-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0030833 all species →	Biological Process	regulation of actin filament polymerization	Interproscan
GO:0051056 all species →	Biological Process	regulation of small GTPase mediated signal transduction	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_036902-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_036902-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

126.4Max TPM

59.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	62.78	87.73
polyp at pH7 6	18	18	64.43	95.26
coral polyp · control treatment	16	16	58.41	126.43
coral polyp · oil and dispersant treatment	16	16	51.07	83.41
coral polyp · oil treatment	16	16	61.43	76.64
coral polyp · dispersant treatment	16	16	45.43	67.89
Polyp	10	10	83.28	125.87

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	-	87.73
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.42
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.98
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.08
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.37
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.46
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.90
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.88
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.74
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.40
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.54
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.26
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.02
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.57
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.51
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.36
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.82
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.83
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.62
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.79
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.33
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.16
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.16
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.43
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.56
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.05
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.43
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.87
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.80
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.41
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.30
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.85
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.43
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.98
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.57
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.78
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.94
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.74
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.10
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.96
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.03
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.71
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.57
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.03
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.54
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.62
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.82
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.31
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.87
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.11
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.67
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.03
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.66
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.12
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.76
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.49
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.46
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.30
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.82
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	125.87
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	98.85
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	95.71
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	87.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	85.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	81.47
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	80.98
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	66.63
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	64.13
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	46.36

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.