Gene detail

Detailed information of OS493_006137-T1 in Lophelia pertusa

Genomic Location: scaffold_13:277495...282938
NR annotation: KAJ7393171.1, Rho GTPase [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
Q2KJ93	Cell division control protein 42 homolog OS=Bos taurus OX=9913 GN=CDC42 PE=1 SV=1
P60952	Cell division control protein 42 homolog OS=Canis lupus familiaris OX=9615 GN=CDC42 PE=2 SV=2
P60953	Cell division control protein 42 homolog OS=Homo sapiens OX=9606 GN=CDC42 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000430 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00071 all species →	Ras	Ras family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037874 all species →	Family	Cdc42	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR003578 all species →	Family	Small GTPase Rho	Interproscan
IPR001806 all species →	Family	Small GTPase	Interproscan
IPR005225 all species →	Domain	Small GTP-binding protein domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24072 all species →	RHO FAMILY GTPASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0007163 all species →	Biological Process	establishment or maintenance of cell polarity	Interproscan
GO:0007264 all species →	Biological Process	small GTPase-mediated signal transduction	Interproscan
GO:0019901 all species →	Molecular Function	protein kinase binding	Interproscan
GO:0032488 all species →	Biological Process	Cdc42 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K04393	CDC42; cell division control protein 42	-	GTP-binding proteins	ko04031	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_006137-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

283.3Max TPM

166.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	141.09	197.08
polyp at pH7 6	18	18	143.76	210.32
coral polyp · control treatment	16	16	187.67	262.59
coral polyp · oil and dispersant treatment	16	16	196.85	283.31
coral polyp · oil treatment	16	16	161.94	261.27
coral polyp · dispersant treatment	16	16	188.81	276.40
Polyp	10	10	138.82	211.45

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	-	197.08
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	192.53
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	155.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	151.80
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	151.24
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	147.82
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	146.07
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	141.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	137.75
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	133.60
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	132.71
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	128.63
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	128.39
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	128.25
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.71
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	119.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	114.42
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	110.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	210.32
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	205.72
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	198.95
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	190.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	176.35
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	173.67
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	154.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	146.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	130.26
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	122.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	122.67
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	120.86
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	109.26
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	108.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.32
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	103.60
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	262.59
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	244.54
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	221.32
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	213.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	213.33
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	208.08
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	200.08
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	193.13
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	186.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	185.35
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	177.02
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	168.04
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	166.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	155.38
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.61
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	283.31
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	276.41
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	267.89
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	264.10
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	235.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	229.52
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	222.90
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	220.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	205.62
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	169.37
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	163.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	150.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	144.87
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	115.18
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	111.89
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.59
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	261.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	218.99
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	213.63
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	205.97
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	203.21
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	199.76
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	178.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	176.22
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	170.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	161.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	125.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	116.90
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	105.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	99.56
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	96.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.21
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	276.40
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	275.53
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	270.74
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	252.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	240.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	205.29
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	203.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	186.17
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	186.08
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	184.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	179.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	161.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	159.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	146.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.57
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	211.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	176.04
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	175.70
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	154.17
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	128.13
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	117.41
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	115.42
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	110.52
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	104.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	95.33

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.