Gene detail

Detailed information of OS493_036901-T1 in Lophelia pertusa

Genomic Location: scaffold_390:25474...86746
NR annotation: KAJ7318910.1, 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
E9Q6X9	Rho GTPase-activating protein 40 OS=Mus musculus OX=10090 GN=Arhgap40 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002600 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00620 all species →	RhoGAP	RhoGAP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR000198 all species →	Domain	Rho GTPase-activating protein domain	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
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_036901-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_036901-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

74.4Max TPM

18.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.26	20.90
polyp at pH7 6	18	18	15.62	24.47
coral polyp · control treatment	16	16	21.68	65.16
coral polyp · oil and dispersant treatment	16	16	20.72	74.39
coral polyp · oil treatment	16	16	19.62	28.76
coral polyp · dispersant treatment	16	16	20.05	28.91
Polyp	10	10	15.93	27.17

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.90
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.76
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.32
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.20
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.75
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.57
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.16
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.91
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.26
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.97
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.97
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.39
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.37
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.60
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.47
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.54
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.06
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.95
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.52
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.47
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.97
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.25
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.85
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.79
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.94
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.57
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.16
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.11
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.78
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.09
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.59
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.61
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.27
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.94
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.85
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.80
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.10
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.50
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.39
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.95
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.23
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.57
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.32
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.75
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.78
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.22
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.95
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.89
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.76
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.25
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.84
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.18
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.56
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.72
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.63
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.59
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.56
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.19
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.65
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.11
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.73
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.51
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.23
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.81
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.62
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.32
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.27
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	27.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	20.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	19.98
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.70
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.44
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.41
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.06

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.