Gene detail

Detailed information of ENSBQFP00000008068.1 in Heliopora coerulea

Genomic Location: JASJOG010000012.1:1765597...1800808
NR annotation: CAB4007525.1, segment polarity dishevelled homolog DVL-3-like isoform X4 [Paramuricea clavata]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000008950

ATGGCGGACGAAACCAAAATAATTTACCACATTGACGACGAAGAAACGCCGTATCTGGTGAAGATTTCGAAGGGACCGAAAGATGTTACTCTCGGGGACTTTAAAAATATACTCAACCGACCCAGCTACAAGTTCTTCTTCAAATCTATGGACGATGATTTTGGCGTTGTAAAAGAGGAAATTAAAGACGACGAAGCCGGCCTTCCATGCGTAAATGGTCGGGTAGTAGCTTGGCTGGTAACATCATCAGAAGGCAGTGCTAGTGATGTTGGGCGAACATTCTCAGAGTCTGGTTCTGAACCTCGTGATCAACAGTCTGTGTTATCTGACCCAGACTCTACTTGTGTTCCTCGTGGGAGAAGTGCTGGCTCAGGAGACTCAAGACCACCATCGGTTCACCGTGGTTCGTCAGGACGAAAAGATAGTGTGGATTCTGAACTGGAGTCTGTAAGTTCTCGACAGTCACACAGACATAGACCAAGACCACGTAGAACCCATCGCTATAAGACACCTAATGAAGATAGTTGTGAGGAATCATCGGTATTAAGCAGTGATTTGGAAACTACAAGTGTCGCTGATTCTGAAGATGACAGACGAAGCAGAATCTCGAGCATTACTGATGGCTCAAGTCTGTATCACGGTCGACATAGAAGACGAAGACGGAGACCAAGGATGCCCCATGTTCAACGGTGTACCTCGTTCAGCACAATAACGGAGTCCACGATGTCCTTGAATATCATTACAGTGACCCTGAATATGGACAAAGCGAACTTCTTGGGAATTAGCATCGTTGGGCAAAGCGGTAGTCGTGGCGATGGCGGCATTCATGTTGGTTCTGTTATGAAAGGGGGAGCAGTGGCCTTGGATGGTCGTATAGAACCTGGAGACATGCTCCTTCAGGTAAATGATGTGGACTTCCAAAATATGAGCAACGACGACGCTGTTCGAGTGCTGAGGGAAATGGTTCATAAACCTGGGCCAATCACTTTGACGGTAGCGAAATGCTGGGACCCTTCTCCGCAGGGATATTTCACCTTACCACAGAGCGAGCCAGTTCGACCAATCAACACGGAAGCCTGGGTTCAACAGTTAGCTGCAATGCGAGTGGATTATAACGGAAAGGATTTGGTTAACCAATCATTGGGGACCATGAATTCAACCAGTTCATCCTTGACAAGCTCCTTGCCAGAGTCAGATCGTTTCAATGACGAGAATTTCTGTCAACTTCACGTAAACAGCGATATGCGAGTCATAGTAAAAGCCCTGGCCAGCGCAGATTCTGGTTTAGACGTTCGTGATAGAATGTGGCTAAAAATTACCATTCCAAACGCTTTTATTGGTTCTGACCTCGTGGATTGGCTGTTCAGTCGCGTCCAGGGTTTTGCAGACAGGAGAGAAGCTCGAAAATATGCATCTAACCTTCTTAAggATGGCTATATCCGTCACACGGTTAACAAAATCACATTCTCCGAGCAATGTTACTACGTCTTCGGTGATTTAGGAGGAAAAATGGCCAGCATGTCCATCAAGGAGCATGACGGTAGCGACCAGGACACCTTGGCACCCCTTCCACAAACGGGACTACCTTGGGCAGGTGCCCCGCCAACATATGCAGGATGGCGTCCGCCGTATCCTATACCCCAGCCTTTCACAGACCATCACCCTTACATTAACCAGCCTGTGCTCCAGGCCCCATCTCAGACTGGCAGCGGGAGCCCACGGAGCGTGAGCAGCGGTTCCCAGAAAAGTCGCGAGAAGGAGATCGACCGTGAGTCTCGGAGCAGCGGAGCCAGCAGTTGCAGTGATCGGAGTGGGAGCAGCAAGGGAGATCGGGTAAGCGTTAAGGAAATACCGCTGCTCAAAGATGCTGTGAGTGTTCCCCCAATCCGAGACTATGGCCGACTGGACACCATGCCCGACACGATAGCCGCCAGTCGAAGCAGCTTCCAAATAGCTTTGTCAAATCCGTGCGAGTTCTTCGTCGATGTTATGTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
B1WAP7	Segment polarity protein dishevelled homolog DVL-3 OS=Xenopus tropicalis OX=8364 GN=dvl3 PE=2 SV=1
Q6DKE2	Segment polarity protein dishevelled homolog DVL-3 OS=Xenopus laevis OX=8355 GN=dvl3 PE=2 SV=1
Q92997	Segment polarity protein dishevelled homolog DVL-3 OS=Homo sapiens OX=9606 GN=DVL3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003086 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02377 all species →	Dishevelled	Dishevelled specific domain	Family	Interproscan
PF00610 all species →	DEP	Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP)	Domain	Interproscan
PF12316 all species →	Dsh_C	Segment polarity protein dishevelled (Dsh) C terminal	Family	Interproscan
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan
PF00778 all species →	DIX	DIX domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR001158 all species →	Domain	DIX domain	Interproscan
IPR003351 all species →	Domain	Dishevelled protein domain	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR000591 all species →	Domain	DEP domain	Interproscan
IPR024580 all species →	Domain	Dishevelled C-terminal	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR015506 all species →	Family	Dishevelled-related protein	Interproscan
IPR038207 all species →	Homologous_superfamily	DIX domain superfamily	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR008339 all species →	Family	Dishevelled family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10878 all species →	SEGMENT POLARITY PROTEIN DISHEVELLED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0005109 all species →	Molecular Function	frizzled binding	Interproscan
GO:0016055 all species →	Biological Process	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
K02353	DVL; segment polarity protein dishevelled	-	Cushing syndrome	ko04934	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000008068.1 across 37 RNA-seq samples of Heliopora coerulea. 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.

37Samples

36TPM > 0

6Conditions

185.4Max TPM

93.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	72.89	102.03
polyp and skeleton · 31C, 3week	6	6	121.04	146.04
polyp and skeleton · 28C, 3week	6	6	117.36	185.44
polyp and skeleton · 26C, 3week	4	4	100.50	156.63
polyp and skeleton · 28C, 24hr	2	2	110.80	112.94
polyp and skeleton · 31C, 24hr	2	1	83.15	166.31

Per sample · hover a bar for the full sample record

Show the sample table (37 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	102.03
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	88.88
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	88.16
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	86.82
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	80.85
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	79.25
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	78.56
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	74.89
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	72.97
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	71.63
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	65.19
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	64.44
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	62.95
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	61.46
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	61.32
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	57.04
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	42.71
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	146.04
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	145.41
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	127.51
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	106.42
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	105.60
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	95.27
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	185.44
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	132.43
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	99.54
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	98.83
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	94.57
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	93.36
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	156.63
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	93.73
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	81.11
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	70.53
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	112.94
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	108.66
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	166.31
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	0.00

Source: CnidoSite RNA-seq expression matrices (HCOER_TPM, StringTie quantification over 37 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.

Co-expression network

Genes whose expression across the transcriptome samples of Heliopora coerulea tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

Direction	Partners	Most correlated partner	PCC
Positively correlated	22	ENSBQFP00000038603	0.852802580163243
Negatively correlated	37	ENSBQFP00000042474	-0.788869551281474

Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list. Partner counts were matched on ENSBQFP00000008068, the spelling this network uses.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Heliopora coerulea, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	ready	open →
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →