Gene detail

Detailed information of OS493_015821-T1 in Lophelia pertusa

Genomic Location: scaffold_48:933905...935965
NR annotation: KAJ7333734.1, growth factor [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)	OG0004176 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03528 all species →	Rabaptin	Rabaptin	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003914 all species →	Family	Rabaptin	Interproscan
IPR018514 all species →	Domain	Rabaptin coiled-coil domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31179 all species →	RAB GTPASE-BINDING EFFECTOR PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0043231 all species →	Cellular Component	intracellular membrane-bounded organelle	Interproscan
GO:0008083 all species →	Molecular Function	growth factor activity	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_015821-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_015821-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

109TPM > 0

7Conditions

29.0Max TPM

12.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.43	29.02
polyp at pH7 6	18	18	12.89	25.66
coral polyp · control treatment	16	16	16.09	26.54
coral polyp · oil and dispersant treatment	16	16	10.56	15.60
coral polyp · oil treatment	16	16	15.40	23.85
coral polyp · dispersant treatment	16	16	11.07	21.59
Polyp	10	9	6.90	16.34

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.31
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.06
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.66
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.50
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.25
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.14
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.52
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.36
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.57
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.19
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.43
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.59
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.90
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.66
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.56
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.68
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.95
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.96
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.32
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.23
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.09
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.07
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.18
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.54
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.01
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.89
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.59
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.09
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.28
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.40
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.89
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.86
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.96
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.08
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.40
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.01
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.12
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.95
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.75
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.85
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.77
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.09
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.91
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.22
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.21
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.98
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.15
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.27
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.04
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.64
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.75
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.11
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.76
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.65
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.30
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.88
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.77
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.34
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.13
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.61
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.71
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.51
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.31
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.07
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.03
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.