Gene detail

Detailed information of OS493_013674-T1 in Lophelia pertusa

Genomic Location: scaffold_38:60775...102866
NR annotation: KAJ7385648.1, hypothetical protein OS493_013674 [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
Q6REY9	Rho GTPase-activating protein 20 OS=Rattus norvegicus OX=10116 GN=Arhgap20 PE=1 SV=2
Q6IFT4	Rho GTPase-activating protein 20 OS=Mus musculus OX=10090 GN=Arhgap20 PE=1 SV=1
Q9P2F6	Rho GTPase-activating protein 20 OS=Homo sapiens OX=9606 GN=ARHGAP20 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001712 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00621 all species →	RhoGEF	RhoGEF domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035899 all species →	Homologous_superfamily	Dbl homology (DH) domain superfamily	Interproscan
IPR000219 all species →	Domain	Dbl homology (DH) domain	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR051092 all species →	Family	FYVE, RhoGEF and PH domain-containing	Interproscan
IPR003116 all species →	Domain	Raf-like Ras-binding	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR047887 all species →	Domain	ARHGAP20, PH domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12673 all species →	FACIOGENITAL DYSPLASIA PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0005089 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007165 all species →	Biological Process	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_013674-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_013674-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

109TPM > 0

7Conditions

21.4Max TPM

7.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.41	12.09
polyp at pH7 6	18	18	6.65	10.90
coral polyp · control treatment	16	16	8.23	14.02
coral polyp · oil and dispersant treatment	16	16	6.12	11.93
coral polyp · oil treatment	16	16	8.09	13.07
coral polyp · dispersant treatment	16	16	11.13	21.44
Polyp	10	9	4.21	8.48

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.09
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.97
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.67
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.57
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.37
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.50
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.49
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.90
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.81
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.32
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.11
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.41
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.70
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.70
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.80
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.98
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.39
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.02
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.21
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.06
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.92
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.87
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.69
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.18
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.37
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.56
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.93
SRR16705977	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	10.07
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.01
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.74
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.21
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.96
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.72
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.33
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.74
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.37
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.78
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.58
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.66
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.65
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.29
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.17
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.81
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.43
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.44
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.79
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.01
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.46
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.82
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.28
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.95
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.47
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.01
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.48
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.31
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.08
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.51
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.21
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.28
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR7746667	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.