Gene detail

Detailed information of OS493_039162-T1 in Lophelia pertusa

Genomic Location: scaffold_961:14864...18967
NR annotation: KAJ7388216.1, negative regulation of Rho guanyl-nucleotide exchange factor, partial [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003663 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15903 all species →	PL48	Filopodia upregulated, FAM65	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR026136 all species →	Family	RIPOR family member 3	Interproscan
IPR031780 all species →	Domain	FAM65, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15829 all species →	PROTEIN KINASE PKN/PRK1, EFFECTOR	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_039162-T1. This gene does have a gene model — the search simply returned no hit.

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_039162-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_039162-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

95TPM > 0

7Conditions

11.8Max TPM

2.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	3.33	5.71
polyp at pH7 6	18	16	4.77	9.11
coral polyp · control treatment	16	15	2.63	9.97
coral polyp · oil and dispersant treatment	16	14	2.74	11.82
coral polyp · oil treatment	16	14	2.14	9.31
coral polyp · dispersant treatment	16	15	2.50	8.56
Polyp	10	6	1.01	3.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.71
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.33
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.09
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.83
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.09
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.11
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.95
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.82
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.52
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.43
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.97
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.60
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.77
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.01
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.98
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.81
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.41
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.82
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.17
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.95
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.31
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.96
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.11
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.26
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.10
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.02
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.46
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.09
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.68
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.35
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.