Gene detail

Detailed information of OS493_040119-T1 in Lophelia pertusa

Genomic Location: scaffold_1757:1223...10858
NR annotation: KAJ7347151.1, Rho GTPase-activating protein 42, partial [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
Q9UNA1	Rho GTPase-activating protein 26 OS=Homo sapiens OX=9606 GN=ARHGAP26 PE=1 SV=1
Q6ZQ82	Rho GTPase-activating protein 26 OS=Mus musculus OX=10090 GN=Arhgap26 PE=1 SV=3
Q5ZMW5	Rho GTPase-activating protein 26 OS=Gallus gallus OX=9031 GN=ARHGAP26 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002545 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16746 all species →	BAR_3	BAR domain of APPL family	Domain	Interproscan
PF00169 all species →	PH	PH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR047234 all species →	Family	GRAF family	Interproscan
IPR027267 all species →	Homologous_superfamily	AH/BAR domain superfamily	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR004148 all species →	Domain	BAR domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR047225 all species →	Domain	GRAF, PH domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12552 all species →	OLIGOPHRENIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_040119-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_040119-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

100TPM > 0

7Conditions

11.4Max TPM

4.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	5.06	10.55
polyp at pH7 6	18	12	4.54	11.35
coral polyp · control treatment	16	16	5.37	10.71
coral polyp · oil and dispersant treatment	16	16	4.06	10.42
coral polyp · oil treatment	16	16	4.36	9.38
coral polyp · dispersant treatment	16	16	4.74	8.01
Polyp	10	8	1.75	3.36

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	-	10.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.51
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.17
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.51
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.33
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.12
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.70
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.65
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.66
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.33
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.89
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.59
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.19
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.82
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.92
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.65
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.44
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.37
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.79
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.58
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.35
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.33
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.05
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.96
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.69
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.96
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.88
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.82
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.38
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.72
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.09
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.52
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.07
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.98
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.62
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.42
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.46
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.36
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.31
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.09
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR7746667	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.