Gene detail

Detailed information of OS493_018836-T1 in Lophelia pertusa

Genomic Location: scaffold_63:1230750...1234650
NR annotation: KAJ7379041.1, 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
P85298	Rho GTPase-activating protein 8 OS=Homo sapiens OX=9606 GN=ARHGAP8 PE=1 SV=1
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

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004831 (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
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_018836-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_018836-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

94TPM > 0

7Conditions

14.5Max TPM

5.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	3.83	8.87
polyp at pH7 6	18	12	4.17	11.78
coral polyp · control treatment	16	16	6.94	14.46
coral polyp · oil and dispersant treatment	16	16	6.93	13.93
coral polyp · oil treatment	16	15	6.25	13.47
coral polyp · dispersant treatment	16	14	4.65	11.22
Polyp	10	8	4.22	10.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.96
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.56
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.78
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.44
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.55
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.32
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.15
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.15
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.03
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.71
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.60
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.52
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.78
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.26
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.93
SRR16705948	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	9.84
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.81
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.30
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.55
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.13
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.02
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.11
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.30
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.27
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.54
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.63
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.35
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.02
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.94
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.10
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.53
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.22
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.29
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.82
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.40
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.58
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.86
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.10
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.68
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.59
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.13
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
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.