Gene detail

Detailed information of ENSBQFP00000037473.1 in Heliopora coerulea

Genomic Location: JASJOG010000126.1:163014...176851
NR annotation: XP_028416243.1, GATOR complex protein WDR59-like isoform X1 [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000042014

ATGGGACTTAAGGGAAACCTACCTGTGAGCTATATATCAGCGCATCTCTCTAAAATAAGTGGCTTGGATTGGTCTCCTGTTGATGGTCGGATATTGCTGACATGTAGTCTTGATAAAGCCGTTAAGTTATGGGACGTCGTTGACGACACACGGAACGCTAAAGCAATTTGTGACCTCCGAGCTCCAGTTTGGCGGGCAAAGTACACACCCCCTGGAAACGCTATACTTACAGTACCGTTGTCAACTCCTTCACAAAGAACGATCAACTGGCCTTTCCTGTGGAACATTGGCAATTTAAAAAATCCTTTGCAGACCTTCTATGAGGCAACCTCTGTTCTGGAATTCCAATGGCGTCGTAGTCAAGGTGAATCTGAGTTTCAGTTATTGACCTGGTCCCGAGATCAGATGTTAAAATTATGGAACTTGGATCCACGTTGCTGGCAGCTGACCACGCCACAGGACATTCGTGAGGAACATAAACCTAAGTTGTCATTATTCGACCCTATATCGTCCCCCGAGGCTCCTGATTTCTTGTCCTCCTCTGGTGAAGATGACACCACTGACGTGACCGTTACATCTGAACGGGATGGCATAATGACTGGCGGGGTTGGGCAACTCCGCAACCTGGAGGAAGAGCTCGCTTATGTTTCTGACGTCATTCAATCATCAAATCTCGTTATGGAAAAGGTGGACATCACAAATCGAAGTTGCGTAGTATCAGTAAGCAGCGGTCACAACAACTGTAGAATGATTATTACATTTCCTTCACTTTATCCTGACAATGCTATGCCGTCCTTCGAGTTCACTGAAGATTCTTCCGTCGACTCAGGAACAAAAGTGAAAATTATCAAGATACTTCGCGAGAAGGCAGAGTCATGTGTGAAGAACAACGAACGCTGTTTAGAGCAATGTTTGAATAGCTTAGTGGCTGGTTTGGAAGATTTGACGGTTCAAGAGCCTGGCACCTCTGGTTCTCAGTTTCTTCAGTTTATGCCAGTTTATTCCGTTGACCTTGATACCCCATTTGGGTGGCAAGACGCTGCAATTCCCTTTCCACGTACATCCGGTGCCACTTTCTGTGCTAGTGGAGTACTGGTCTGTTTTAGCCGTTCGACGAGGTCATTAAGTAGAAAAAGAGAAATCACTCCCAGaTCTTTGTCTGCTTTGTCGGCGACCACCTCACGAAGTTTGTCATCCTTTTACAATTCTGAAACGCTCAAGACTGGAGTGAACAAGTCAGGGCCATCTGCTCGTAAAGCTCTTGTCATTTTTCGAGATTCCTCGCCATTAATGGCCTCTAATCGCTCCTTGGCACAGAATTATTCCCTTTTTGGAGGTGATGCTAAGGAATTGtgtgagaaaaataaaaaagctgcCATGGTGGTTGGCCGTCAAGATCTAGTGCATGCCTGGTCACTGCTGGCTTTGATAATGGACTCCAAACTTGCTCCATCAACTTCTTCTTCGGACCCACCTTGGGCTAGCCACCCATTTGGACGCAAATTGCTCGATTCATTAGTGGATTATTATACGAAGATTAGCGACATCCAGATGTTAGCCATGATAGCTTGTCTTCTTTCGTATCAATCGCTTCCTGAATCGTTTGGCAAACCTTACATTCCTGACCCAATGCAAGAAAGTAATCAAGATAGTCATCATGATTCAAATATCGCCAGAAATCCCAACACACTTGATGACGAATTcccaaattttgaagaagctggtcCGGCAAGTTATTCTTCTTCACAGAATGGTAGTTTTTCGCCATTTTTTACAATTATTAACTTTAAGAATCCCGCCGAAGAAGAACGAAAGCAACACGAGAAAAATTGCAGatttgttgaaaaagaaaagcaagaattGTTCGACCATTTTAAACTGTGCTACGCTGATCTTCTCTACAAATGGCAGTTGATGAACAGAAGAAGTGAAGTGCTGAAATTCGTCTTAAAACCTCAAAGGTTCCATCGTGATAAAGATTTTTCGATGAAATGTTCATTTTGCCATCAATATTTTTCTGGCCCATTGTGTGGTACTTGTAAGAAGTTTGGCTTTCGTTGTGCCGTTTGTCGCTTGGCTGTCAAAGGTTCTTCTAATTTCTGTCTATCTTGTGGTCACGGAGGGCATACGTTGCATATTCTTAAATGGTTTGAAACTATGGATGTCTGTGCCACTGGCTGCGGCTGTCACTGTCCCACCCAAGAGTCTCTCACCGAACCTTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6PJI9	GATOR2 complex protein WDR59 OS=Homo sapiens OX=9606 GN=WDR59 PE=1 SV=2
Q8C0M0	GATOR2 complex protein WDR59 OS=Mus musculus OX=10090 GN=Wdr59 PE=1 SV=2
Q5ZLG9	GATOR2 complex protein WDR59 OS=Gallus gallus OX=9031 GN=WDR59 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003073 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17120 all species →	zf-RING_16	RING/Ubox like zinc-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR049567 all species →	Family	GATOR complex protein WDR59-like	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR049566 all species →	Domain	WDR59/RTC1-like, RING zinc finger domain	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR039456 all species →	Domain	WDR59, modified RING finger, H2 subclass, C3H3C2-type	Interproscan
IPR006575 all species →	Domain	RWD domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46170 all species →	GATOR COMPLEX PROTEIN WDR59	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005774 all species →	Cellular Component	vacuolar membrane	Interproscan
GO:0034198 all species →	Biological Process	cellular response to amino acid starvation	Interproscan
GO:0035591 all species →	Molecular Function	signaling adaptor activity	Interproscan
GO:0035859 all species →	Cellular Component	Seh1-associated complex	Interproscan
GO:1904263 all species →	Biological Process	positive regulation of TORC1 signaling	Interproscan
GO:0005515 all species →	Molecular Function	protein 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

No KEGG orthology assignment for ENSBQFP00000037473.1.

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000037473.1 across 37 RNA-seq samples of Heliopora coerulea. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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

0TPM > 0

6Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Whole coral	17	0	0.00	0.00
polyp and skeleton · 31C, 3week	6	0	0.00	0.00
polyp and skeleton · 28C, 3week	6	0	0.00	0.00
polyp and skeleton · 26C, 3week	4	0	0.00	0.00
polyp and skeleton · 28C, 24hr	2	0	0.00	0.00
polyp and skeleton · 31C, 24hr	2	0	0.00	0.00

Per sample · hover a bar for the full sample record

Show the sample table (37 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860

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	0	not in this network	-
Negatively correlated	0	not in this network	-

This gene has no edge at all in the Heliopora coerulea network, in either direction — it is not one of the genes the network was built from (the network covers genes with enough expression variation across the transcriptome samples). The counts above are a property of the network, not a failed lookup.

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.

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.	no expression matrix	–
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 →