Gene detail

Detailed information of OS493_022832-T1 in Lophelia pertusa

Genomic Location: scaffold_98:36549...41973
NR annotation: KAJ7384204.1, hypothetical protein OS493_022832 [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
P33277	GTPase-activating protein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=gap1 PE=4 SV=1
Q86VI3	Ras GTPase-activating-like protein IQGAP3 OS=Homo sapiens OX=9606 GN=IQGAP3 PE=1 SV=2
Q8MLZ5	Ras GTPase-activating protein gap-2 OS=Caenorhabditis elegans OX=6239 GN=gap-2 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002529 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00616 all species →	RasGAP	GTPase-activator protein for Ras-like GTPase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR001936 all species →	Domain	Ras GTPase-activating domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14149 all species →	RAS GTPASE-ACTIVATING PROTEIN WITH IQ MOTIF	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0043087 all species →	Biological Process	regulation of GTPase activity	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005938 all species →	Cellular Component	cell cortex	Interproscan
GO:0046580 all species →	Biological Process	negative regulation of Ras protein 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_022832-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_022832-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

104TPM > 0

7Conditions

34.2Max TPM

6.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	4.53	7.29
polyp at pH7 6	18	16	5.16	7.67
coral polyp · control treatment	16	16	4.93	9.38
coral polyp · oil and dispersant treatment	16	15	9.04	18.96
coral polyp · oil treatment	16	16	4.75	12.17
coral polyp · dispersant treatment	16	15	8.83	34.23
Polyp	10	9	7.03	16.99

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.29
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.24
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.10
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.12
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.80
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.27
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.58
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.22
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.17
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.03
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.87
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.84
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.60
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.18
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.03
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.66
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.52
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.80
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
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.38
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.67
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.57
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.88
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.45
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.96
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.64
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.79
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.17
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.56
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.35
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.36
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.95
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.91
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.64
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.45
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.66
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.10
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.50
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.62
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.41
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.09
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.98
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.59
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.11
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.16
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.16
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.04
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.44
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.08
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.07
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.28
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.