Gene detail

Detailed information of OS493_018314-T1 in Lophelia pertusa

Genomic Location: scaffold_60:1319683...1321176
NR annotation: KAJ7333138.1, Vang-like protein 1 [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
Q90Z05	Vang-like protein 2-B OS=Xenopus laevis OX=8355 GN=vangl2-b PE=1 SV=1
Q90X64	Vang-like protein 2-A OS=Xenopus laevis OX=8355 GN=vangl2-a PE=1 SV=1
Q4VBG5	Vang-like protein 2 OS=Xenopus tropicalis OX=8364 GN=vangl2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009093 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06638 all species →	Strabismus	Strabismus protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009539 all species →	Family	Vang-like protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20886 all species →	VANG-LIKE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001736 all species →	Biological Process	establishment of planar polarity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007275 all species →	Biological Process	multicellular organism development	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0060071 all species →	Biological Process	Wnt signaling pathway, planar cell polarity pathway	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
K04510	VANGL; vang-like	-	Wnt signaling pathway	ko04310	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_018314-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

52.4Max TPM

19.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.77	21.73
polyp at pH7 6	18	18	17.99	22.89
coral polyp · control treatment	16	16	20.59	32.62
coral polyp · oil and dispersant treatment	16	16	17.42	33.11
coral polyp · oil treatment	16	16	19.84	30.02
coral polyp · dispersant treatment	16	16	30.72	52.41
Polyp	10	10	13.45	22.04

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	-	21.73
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.90
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.53
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.28
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.73
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.63
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.91
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.75
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.19
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.88
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.89
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.45
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.02
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.99
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.61
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.57
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.94
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.17
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.46
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.65
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.72
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.10
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.41
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.67
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.11
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.26
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.07
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.46
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.92
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.53
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.72
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.51
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.02
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.55
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.97
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.55
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.76
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.26
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.15
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.89
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.11
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.46
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.36
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.41
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.09
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.88
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.27
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.57
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.50
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.65
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.70
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.86
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.04
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	17.41
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	16.52
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.08
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.33
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.89
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.82
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.25

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.