Gene detail

Detailed information of OS493_018850-T1 in Lophelia pertusa

Genomic Location: scaffold_63:1513459...1523441
NR annotation: KAJ7379055.1, Rho GTPase-activating protein 1 [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
Q9CXP4	Rho GTPase-activating protein 8 OS=Mus musculus OX=10090 GN=Arhgap8 PE=2 SV=3
Q07960	Rho GTPase-activating protein 1 OS=Homo sapiens OX=9606 GN=ARHGAP1 PE=1 SV=1
Q5FWK3	Rho GTPase-activating protein 1 OS=Mus musculus OX=10090 GN=Arhgap1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004831 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13716 all species →	CRAL_TRIO_2	Divergent CRAL/TRIO domain	Domain	Interproscan
PF00620 all species →	RhoGAP	RhoGAP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001251 all species →	Domain	CRAL-TRIO lipid binding domain	Interproscan
IPR000198 all species →	Domain	Rho GTPase-activating protein domain	Interproscan
IPR036865 all species →	Homologous_superfamily	CRAL-TRIO lipid binding domain superfamily	Interproscan
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45808 all species →	RHO GTPASE-ACTIVATING PROTEIN 68F	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:0007264 all species →	Biological Process	small GTPase-mediated signal transduction	Interproscan
GO:2001136 all species →	Biological Process	negative regulation of endocytic recycling	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_018850-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_018850-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

107TPM > 0

7Conditions

33.4Max TPM

8.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.43	10.88
polyp at pH7 6	18	17	6.71	10.37
coral polyp · control treatment	16	16	12.92	33.43
coral polyp · oil and dispersant treatment	16	16	10.99	20.26
coral polyp · oil treatment	16	16	9.49	16.64
coral polyp · dispersant treatment	16	15	6.60	10.81
Polyp	10	9	4.13	10.55

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	-	10.88
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.61
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.23
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.96
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.44
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.90
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.83
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.58
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.37
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.91
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.41
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.36
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.94
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.15
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.90
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.72
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.17
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.95
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.35
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.60
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.13
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.35
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.58
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.95
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.97
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.21
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.25
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.64
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.95
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.84
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.32
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.22
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.89
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.41
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.81
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.18
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.09
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.06
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.63
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.01
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.55
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.93
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.08
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.66
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.64
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.40
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.89
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.49
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.