Gene detail

Detailed information of OS493_011555-T1 in Lophelia pertusa

Genomic Location: scaffold_29:2448535...2453280
NR annotation: KAJ7363273.1, hypothetical protein OS493_011555 [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
P87387	Protein Wnt-2b-A OS=Xenopus laevis OX=8355 GN=wnt2b-a PE=2 SV=1
Q98SN7	Protein Wnt-2b OS=Gallus gallus OX=9031 GN=WNT2B PE=1 SV=1
Q93097	Protein Wnt-2b OS=Homo sapiens OX=9606 GN=WNT2B PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000213 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00110 all species →	wnt	wnt family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005817 all species →	Family	Wnt	Interproscan
IPR018161 all species →	Conserved_site	Wnt protein, conserved site	Interproscan
IPR043158 all species →	Homologous_superfamily	Wnt, C-terminal domain	Interproscan
IPR009140 all species →	Family	Wnt-2 protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12027 all species →	WNT RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005102 all species →	Molecular Function	signaling receptor binding	Interproscan
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0007275 all species →	Biological Process	multicellular organism development	Interproscan
GO:0016055 all species →	Biological Process	Wnt signaling pathway	Interproscan
GO:0005109 all species →	Molecular Function	frizzled binding	Interproscan
GO:0005125 all species →	Molecular Function	cytokine activity	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0030182 all species →	Biological Process	neuron differentiation	Interproscan
GO:0045165 all species →	Biological Process	cell fate commitment	Interproscan
GO:0060070 all species →	Biological Process	canonical Wnt signaling 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
K00182	WNT2; wingless-type MMTV integration site family, member 2	-	Glycosaminoglycan binding proteins	ko00536	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_011555-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

65TPM > 0

7Conditions

4.8Max TPM

0.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	5	0.08	0.46
polyp at pH7 6	18	11	1.02	3.50
coral polyp · control treatment	16	14	1.12	4.79
coral polyp · oil and dispersant treatment	16	9	0.22	0.88
coral polyp · oil treatment	16	9	0.61	4.11
coral polyp · dispersant treatment	16	12	0.55	2.40
Polyp	10	5	0.61	3.08

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.32
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.29
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.24
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.19
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
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	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
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.50
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.22
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.25
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.59
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.45
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.21
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	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
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.79
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.90
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.58
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.54
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.07
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.88
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.50
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.35
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.26
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	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
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.11
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.68
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.40
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.25
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.13
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	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
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.18
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.09
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.08
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.24
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.23
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
SRR7746668	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.