Gene detail

Detailed information of OS493_036462-T1 in Lophelia pertusa

Genomic Location: scaffold_365:249258...262377
NR annotation: KAJ7351127.1, SLIT-ROBO Rho GTPase-activating protein 3 [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
Q7Z6B7	SLIT-ROBO Rho GTPase-activating protein 1 OS=Homo sapiens OX=9606 GN=SRGAP1 PE=1 SV=1
O43295	SLIT-ROBO Rho GTPase-activating protein 3 OS=Homo sapiens OX=9606 GN=SRGAP3 PE=1 SV=3
Q812A2	SLIT-ROBO Rho GTPase-activating protein 3 OS=Mus musculus OX=10090 GN=Srgap3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004563 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00611 all species →	FCH	Fes/CIP4, and EFC/F-BAR homology domain	Family	Interproscan
PF00620 all species →	RhoGAP	RhoGAP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000198 all species →	Domain	Rho GTPase-activating protein domain	Interproscan
IPR051627 all species →	Family	SLIT-ROBO Rho GTPase-activating	Interproscan
IPR027267 all species →	Homologous_superfamily	AH/BAR domain superfamily	Interproscan
IPR001060 all species →	Domain	FCH domain	Interproscan
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR031160 all species →	Domain	F-BAR domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14166 all species →	SLIT-ROBO RHO GTPASE ACTIVATING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0030336 all species →	Biological Process	negative regulation of cell migration	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_036462-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_036462-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

47.4Max TPM

19.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.42	17.80
polyp at pH7 6	18	18	13.69	23.34
coral polyp · control treatment	16	16	27.61	47.45
coral polyp · oil and dispersant treatment	16	16	29.77	45.82
coral polyp · oil treatment	16	16	21.39	43.28
coral polyp · dispersant treatment	16	16	23.47	35.61
Polyp	10	10	6.90	13.02

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.80
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.98
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.34
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.52
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.05
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.88
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.96
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.20
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.54
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.50
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.64
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.34
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.85
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.15
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.86
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.37
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.49
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.88
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.89
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.70
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.74
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.76
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.52
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.10
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.33
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.49
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.68
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.80
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.92
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.37
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.95
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.23
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.64
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.74
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.31
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.96
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.28
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.28
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.62
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.60
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.47
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.03
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.04
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.64
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.54
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.90
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.69
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.45
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.37
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.68
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	13.02
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.35
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.82
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.38
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.78
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.16
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.10

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.