Gene detail

Detailed information of ENSBQFP00000022172.1 in Heliopora coerulea

Genomic Location: JASJOG010000057.1:1104088...1130939
NR annotation: XP_028393343.1, 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-4-like isoform X2 [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000024715

ATGGAAATACCGATGCAATTATGGAATATTGCTGTACCAAGCTTGTTCCAGTCGGGGACGATACTGCATAAGTGGGAAGAGGAGTCCAATGCGATGCATGAATGTCACTTCACTGTTGATCGATACGGCTTTTTCCTTGCATTTCGCGAGACTGAAAAGGAGCCTTCGTGCGTGGATTTGGCGACTGTGACAGAAGTGAGACATGGTGGACAGCTTCCTAAGGATGCAAGAATACGGAGTGCCCTGGAGTGTAGTGGCCCAGAAAGTCTCAAGGATCGTGTGTTTACAGTTGTCATTGCTCAGAACCTTGTGGACCTTTCCTTTCTTCATCTTTGTTCAAGTTCTTCACGAGTTGCCAGGGAATGGGTTGAAGGATTGCAATCATTATGTAATTCAGTCAAATCTGCTAATTTAAGTGTGATGACAATGCTTCTGAAACTGTACACCAAGGTAACCTCTTTGAAAGTTAATGGAAAGATTTCTGTCAGAAGtaTCTGCAAGTGTTTTAATTGTggaagaaattatgaaaaaagGATTTTGGATGGTTTACAAGCAATGGATCTTCCACATGGAAAGGGTGATGAAATAGATGCAAACCAGTTTACATTTGATAATTTCTACCAACTGTATGTTAAAGTATGTCCCAGACAGGACTTTGATCGGATTTTTACAAAATGGCAAGAAGGCAAAGCACCATACCTAACTCCCAGGAGGTTAATGGAGTTTATCAACACTGAACAACGGGATCCCGGTGCTAATGAAATCTTGCATCCACCTTGCAATCGCGAAAGTGCCATGAAAATAATCAGCAAGTATGAAAGATGCAAAGAAATGGTTAAACGAGGACGTATGAGCCCTGATGGTTTCTCGCGATACATGATGTCGGACGAAAATTCTTGTGTCAGTCATCAGCTGTTTGAAGTTTACCAAGATATGAATCAACCGCTTTCACACTATTTTATTAATTCATCTCATAACACGTATTTAATAGGTCGACAGTTTGGTGGAAAATCCTCAGTAGATATGTATCGACAATGTTTGCTCAATGGATGCCGTTGCATCGAGTTAGATTGTTGGGACGGTCCTGGTGACGAGCCGATAATAACGCATGGTAAAGCGATGTGCACCAACATCCTTTTCAAGGACGTTATTGAGGCTATAAAAGAAACTGCGTTCGTAACTTCAGAATATCCAGTTTTACTGTCGTTTGAAAATCATTGCTGCAAATACCAGCAATACAAGATGGCTTGTTATTGTACAGATATACTTGGCGACCTTCTTTTATGTTCTCCACTTGATTCACACCCTCTTGACGAAAACCAACCGTTGCCGTCCCCAAATcttttaaagagaaaaattctaattaaaaacaagaaattaaGAGCGGACCAGGAGTCAAATTATGACACAGACAGTATGTCGTCAGACAGTCGTAAGTCGAGCGAGGTGAAACTGGAAGATATCAAGAACATGCCGACCAGGATGTCACGATTGCTAGAGGACGATGACGGCGAACAAGCCGCTTTGAAAGAAAGCGGATTTGTAAATATTCTGAAAGATGAGAAAACTGTTCGTTCTTCGATCACGAAGGAACAAAGCCGTGAAAATGTCAACGGTAACGATGTCAGGAGACAGCGGTTCAGGGAAAGAAGGAGGCAttcagaagaaaaaaaacaggGAGAGTTATCCGACGAACAGGAGCTGCTGAATGGTTGTATAACGGAGGAAAGCGGAAAGGAGGCTGGTGACGAGTTTAAGGGAGAGGGTAACGAACTGACGACATCTGCTACCGATTTTTACAACAATAATGAGAAAACCAACGGTAGCGAGTCAGGCAAAGGTGTCAGGGCAGGTCTCGAAGATTTTGATCAAGTGATTGAATTGAAGGAATCTGACAGTAGTCCCTCAGATGACGATGACGACAACAAGGAATTTAATCCGAACTCAAGCATTCCTTTCAATCAGAGCGAAACTATGTATCCCACCCTGTCGAAAAGTAAAAGGACGACAAGCTTGCCAATTGCAATGGAGGTGGCTACCGGACGGAAAGGTTCCACGACAAGTACTGACTCTGCTCGCACAGAATCCGACGATGACCGCGATGTGAGACGAGCTGAAAGTTTTGCCTCGTTTGGAAGTTCAATAAAAACTGTTCAACGGCGACAGAGTTCACAGGCAAGCTTGAATCAAGAGGAGGTTGCAGAATATCTGGCCAGTCAACACCAGCAATCTGCATCTCTTGGGAATATACATCCTAATTTATCCTGTCTGGTATCGTACACTCAACCAGTACCGTTCCCTGGATTTGAAAGATCAGAAGaGGCCAAACTTCATTATTTAATGTCGTCGTTTAACGAGTGTGCCGCTTTCACGCTTCTGAAGGGAAATCCAGTGGAATTCGTCAAGTACAACCAGCGCCAGTTTTCTCGAATATATCCTAAAGGAAGTCGAGTTGACTCCAGTAACTACATGCCTCAGGTTTTCTGGAATGCTGGTTCCCAAATGGTGGCTCTTAACTTTCAGACGACAGATCTTGCGTTTCAGTTAAACGCTGGAAAGTTCTTGGACAATGGGAGGTGTGGTTATTTGCTGAAGCCAAGTATAATGCgaaaaagtgacaaaaatttTGATCCTTTCACGGAGTTACCAGTAGACGGAGTTGTGGCCACTTGTGTTGGCATTAAGGTTATTTCTGGCCAGTTCTTGTCTGATAGAAGAGTCGGAACGTACGTGGAAGTGGATTTATATGGACTACCAACTGACACCATTAGGAAGCGATTTAAAACGAAGATTGTTAATAGCAATGGGATGAATCCGGTTTACGACAGTGATGAATTTACTTTTAAACGGATTGTTCTCCCAGAACTGGCGTTATTACGTTTTACGGTCCTTGACGACAGTGACCGAATGCTAGGACAACGCATAGTTCCTGTAAGTGCAATTCAACCAGGTTACCGTCACATTCCTTTATGGACAGAAACCTGTTGTCCCCTTCCTCTGTCGACCCTGTTTTGTCACATTTCCCTCAACGTGTTTGTCTTCGAAGGCTTTTCCGgCGTTGTTGACGAGCTGTCCCAACCTATCAAATTCCAGTCAGCCGTTGAGAAGAGAGCTGAGGCCATTTAtcgaatttttgattttgaagaGGACTACGACGAAGTCGTGCCAGTTCCTCCTTACAACGGAAATGGATTTCCTCCGAAATCGCCTAAAGGATTAAACTTCGTGACGAACAACAGACGGGAGTCCACAGTAACCCTAAGTATGTCGTCGTCAATGTCTAGTCTCCAACTCAATTCCTCGTATTATTACAATCGCTTACCCAGCCAAACTGAAAGTAAACTTCAGCCAACAAATGTGGAAGAATTAAAGAAAGATAAGCTGTTCACCAAGATGTTAAAGAAACATCAAAAGGAGTCAGATACGTTGACAAAACGTCAAGTGAAGGAACGTTCTGGATTAAGTAAACAACACAACACGAAGTTGGAAAGACTGTTTTTCAGTGCTCAAAAAGTTAAGGAGAGTGTGAAGAAGAGTCATGAAAGAGCAAAAAGAAAGCGTGGGGATAGCGCGCTTGAAGAACTTGAAAAAGCTTACGAGGAAAAAATGGCCGACCTTACCAGAATACAACAAAAAACGGTCAAAGATGTGATTGACCAACAGTCCGAGGAGTGGTGCGCTCTTATATCACAGCAAGTTAAGGAAGAAGTGGAGTTGTACGACACGCACGCGCCTCAGCAATTTTCGTTGCTACAGAAATTGTTGGATGCAGCCCACGAGAACCAATTCAAAGAGCTGGAATCACGACATGACAAGGAAAGCGCTGACCTCCGTAAGAAGCAAGTCAAACAGTCTGTGGAGACGTCGAAAATGGCagagaaacaaataaaaagcaaaGACGAGAAAGAAAGAATGTTGAGAGAGTTGGATAGAATAAACATCAAGGAATTTGCTGAGGAAAGGCAGCAGCTGGAGAAGCGTCAAGTGAAGGAAGCAGAAGAGTTAATGAGCTTCCACAGAAAAGAATGTGAACAGCTAGACATTAActtccaaaaagaaATCGAAGAGCATAAGGAACAGATAAAATTGGGCGAAGAAGCTCTGAGAAAACCATTCCTGTATTCGTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q15147	1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-4 OS=Homo sapiens OX=9606 GN=PLCB4 PE=1 SV=3
Q9QW07	1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-4 OS=Rattus norvegicus OX=10116 GN=Plcb4 PE=1 SV=2
Q07722	1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-4 (Fragment) OS=Bos taurus OX=9913 GN=PLCB4 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001136 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06631 all species →	DUF1154	Protein of unknown function (DUF1154)	Family	Interproscan
PF00387 all species →	PI-PLC-Y	Phosphatidylinositol-specific phospholipase C, Y domain	Family	Interproscan
PF17787 all species →	PH_14	PH domain	Domain	Interproscan
PF09279 all species →	EF-hand_like	Phosphoinositide-specific phospholipase C, efhand-like	Domain	Interproscan
PF00388 all species →	PI-PLC-X	Phosphatidylinositol-specific phospholipase C, X domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001192 all species →	Family	Phosphoinositide phospholipase C family	Interproscan
IPR000909 all species →	Domain	Phosphatidylinositol-specific phospholipase C, X domain	Interproscan
IPR001711 all species →	Domain	Phospholipase C, phosphatidylinositol-specific, Y domain	Interproscan
IPR009535 all species →	Conserved_site	Phospholipase C-beta, conserved site	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR017946 all species →	Homologous_superfamily	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain superfamily	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR016280 all species →	Family	Phosphatidylinositol-4, 5-bisphosphate phosphodiesterase beta	Interproscan
IPR042531 all species →	Homologous_superfamily	Phospholipase C-beta, C-terminal domain superfamily	Interproscan
IPR037862 all species →	Domain	PLC-beta, PH domain	Interproscan
IPR015359 all species →	Domain	Phosphoinositide-specific phospholipase C, EF-hand-like domain	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10336 all species →	PHOSPHOINOSITIDE-SPECIFIC PHOSPHOLIPASE C FAMILY PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0004435 all species →	Molecular Function	phosphatidylinositol phospholipase C activity	Interproscan
GO:0048015 all species →	Biological Process	phosphatidylinositol-mediated signaling	Interproscan
GO:0051209 all species →	Biological Process	release of sequestered calcium ion into cytosol	Interproscan
GO:0006629 all species →	Biological Process	lipid metabolic process	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0008081 all species →	Molecular Function	phosphoric diester hydrolase activity	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	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
K05858	PLCB; phosphatidylinositol phospholipase C, beta	EC:3.1.4.11	Membrane trafficking	ko04131	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000022172.1 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

34TPM > 0

6Conditions

151.7Max TPM

49.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	14	20.02	34.86
polyp and skeleton · 31C, 3week	6	6	58.85	73.23
polyp and skeleton · 28C, 3week	6	6	82.98	151.73
polyp and skeleton · 26C, 3week	4	4	79.41	102.78
polyp and skeleton · 28C, 24hr	2	2	82.88	84.46
polyp and skeleton · 31C, 24hr	2	2	81.24	104.24

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
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	34.86
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	33.02
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	29.65
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	29.26
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	28.20
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	26.78
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	25.75
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	21.69
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	21.33
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	21.20
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	20.04
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	19.91
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	15.40
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	13.17
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	0.00
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	0.00
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	0.00
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	73.23
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	70.79
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	61.88
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	57.99
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	52.79
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	36.45
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	151.73
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	114.07
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	72.64
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	63.21
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	56.26
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	39.98
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	102.78
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	90.04
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	68.19
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	56.63
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	84.46
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	81.30
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	104.24
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	58.25

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	33	ENSBQFP00000029120	0.932385958691862
Negatively correlated	211	ENSBQFP00000049985	-0.889824710991649

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 ENSBQFP00000022172, 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 →