Gene detail

Detailed information of OS493_019024-T1 in Lophelia pertusa

Genomic Location: scaffold_64:1375872...1380787
NR annotation: KAJ7372515.1, Rho GTPase activating protein 39 [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
P59281	Rho GTPase-activating protein 39 OS=Mus musculus OX=10090 GN=Arhgap39 PE=1 SV=2
Q9C0H5	Rho GTPase-activating protein 39 OS=Homo sapiens OX=9606 GN=ARHGAP39 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003516 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_019024-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR001202 all species →	Domain	WW domain	Interproscan
IPR036020 all species →	Homologous_superfamily	WW domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45876 all species →	FI04035P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	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_019024-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_019024-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

108TPM > 0

7Conditions

28.1Max TPM

11.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.19	19.68
polyp at pH7 6	18	16	9.76	14.17
coral polyp · control treatment	16	16	13.90	28.11
coral polyp · oil and dispersant treatment	16	16	12.80	26.97
coral polyp · oil treatment	16	16	11.39	15.98
coral polyp · dispersant treatment	16	16	12.26	24.09
Polyp	10	10	6.98	10.44

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	-	19.68
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.56
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.65
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.10
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.51
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.81
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.22
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.60
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.31
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.70
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.67
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.17
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.27
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.22
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.96
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.34
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.92
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.64
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.56
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.50
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.39
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.47
SRR11359513	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.44
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.77
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.02
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.01
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.54
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.24
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.06
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.76
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.10
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.76
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.71
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.80
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.60
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.98
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.83
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.79
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.61
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.51
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.47
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.25
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.12
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.81
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.79
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.09
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.17
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.94
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.92
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.37
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.18
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.95
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.64
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.44
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.29
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.86
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.71
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.24
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.22
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.25

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.