Gene detail

Detailed information of OS493_022916-T1 in Lophelia pertusa

Genomic Location: scaffold_98:957673...983541
NR annotation: KAJ7384282.1, hypothetical protein OS493_022916 [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
PF03836 all species →	RasGAP_C	RasGAP C-terminus	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
IPR000593 all species →	Domain	RasGAP protein, C-terminal	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: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
GO:0043087 all species →	Biological Process	regulation of GTPase activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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_022916-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_022916-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

110TPM > 0

7Conditions

73.7Max TPM

19.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.94	13.55
polyp at pH7 6	18	18	10.50	18.72
coral polyp · control treatment	16	16	23.46	70.89
coral polyp · oil and dispersant treatment	16	16	35.98	73.74
coral polyp · oil treatment	16	16	18.30	39.81
coral polyp · dispersant treatment	16	16	23.04	52.67
Polyp	10	10	20.89	43.03

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.55
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.12
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.10
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.77
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.68
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.88
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.64
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.66
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.51
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.96
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.86
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.91
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.28
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.10
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.54
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.12
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.92
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.36
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.89
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.05
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.87
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.56
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.42
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.31
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.76
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.28
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.54
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.71
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.38
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.76
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.32
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.56
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.86
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.26
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.68
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.17
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.70
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.34
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.09
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.88
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.42
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.20
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.76
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.82
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	43.03
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.39
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.86
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	25.82
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	17.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	17.54
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.55
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.26
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.72

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.