Gene detail

Detailed information of ENSBQFP00000020328.1 in Heliopora coerulea

Genomic Location: JASJOG010000051.1:210971...227737
NR annotation: XP_028417195.1, hepatocyte growth factor-regulated tyrosine kinase substrate-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000022637

ATGGggataaattctacatttaaAGAAGCAGTTGAGCGAGCAACAAGTCCGACACTGTTAGAGCCTGACTGGGCAGCGATTCTTCAAGTCTGTGATAGCATCAGACAGCAAGATGTTTCAGGCAAAATTGCagtcagtgaaataaaaaagaagataTTTGATTCAAATCCACATGTATCAAAAAATGCCATCATTACTTTGGAAGCTTGTGTAAAGAATTGTGGCTCTACTGTTCATGAAGAAGTTGCTACAAAACAATTTATGGATGATTTCCGTCAGTATTTGAAGACATGTCCTGATACAGTCAAGGCAGAACTACTCCGAATTATTCAGGCTTGGGCCCATGGTTTCCGCAATGAGCCAAAGTACAAAGTTGTTGAGGATACTCGCaatcttttgaaaatggaaGGTAACAGCTTCccagaaaaaaatgaaagcgATGCCATGTTTAGTGCTTTAAGGgcCCCAGACTGGGCTGATGGAGATGTCTGCCACCGATGTCGAGTCAAATTCAAGACATTTAATCGGCAGCATCACTGTCGTTGCTGTGGTCAAGTGTTTTGCCACAAATGTTCATCCAAAGTCTCAACGATTCCCAAATTTGGCATTGAGCGTGAAGTTCGTGTCTGTGACCCATGCTACGACCAGCTTAATCCGGATGAAAAGACCTCGTCGACCAAGCAAACCTCCACTTCCTCCTCTAAGAGTGACTTGCCTCAAGAATATTTACAGAGCGCGCTGGCTAAAGAATCTCAGGTTCCGGAAAAGAAATCTGACGAAGAGATAAAGAGACAGGAGCAAGAAGACCTACAGCTAGCCATGGCACTTTCCGTTTCCGAACAAGAATCCAAACAGAATCAAGGACCAAGCTCTCAGTTGTCAAATCCTTACTCGGTACCAGAAACTAGGCCTTCTGCGCCCGCGATTCCTTCAAGCTACAGCTACTCGTACCCATcaatggaagaagaagaagaagaggaagatcCAGAGTTGGCTCGCTACCTAAACAGACCTTACTGGGAAAGCAGAAGTGAAGCCAGTCCTCCAGAATACCGTTCGCCATCTTCAGATGAGCAACCAATCACATCAACAGCAACTGTCAATGGAGAACACGCAAGCCAAACATCACAAGATTCTGAGTCTGAAGCATTCCTCAGTACATTCCGTAGTAACATCGAGAAGCTAATGCAAAGGATGCAATATGTCAGGGGAAAAGGTCGGCATATTTCGACAGATACAATCACGCAGTCTTTATTTCAAACAGTAAGCGCCATGCATCCACAGCTTCTAACCCTTATTGAACAACAGGAACAAGAAAAAGAAAAGTACGAAGGATTGGAGAGGAAACTAGGTGTTCTGGAGGAGACTAGGCACTCATTGAACGACTTGCGGGCTCAGCGACGAGAAAAACTTCGCCAGCAAGAACTGGAACAAGACATGCTAAGGCGAATGCAAATGGAACAGAAAATGGAGTTGCTGCGGCAGCAGAAGCAAGAGTACATGCTGTATCAACAACAGCTGCAGATGCAAAGGCAACAAGCTTTGGAACAAAAGGCCAAAGAACAAGCCATGAACTATCCGGTGACGTCATCATATGGAATGTATCAAGCACCCCCTAAATATCCGGTTCCTCAAGACACCACGAGTAGCGCCGTACCCGATTCTTATGGCCAAGCGACGTACAATCCTGCTGGCGAGGTACCACTTCAGTATCAGGCTGTTAACCCATCCACTCAGCCGCCCACTTATCAATCAGTAACCCCAGGAACTCAACCCATGAGCTCTCGCCCTGGAGCGCAAAGACCAGCCCAACCTCCCCAGTACCAATCGTCTCCCAACCAATACGAACCACCGATCACGCAGTATCAGAGCATGTCCCTTCAAGGTGAAGACCGAATCCCTCCTGCATACCAGCCTGGTGTCCAGCCTGGTGTCCAGCCTGCTGCTAGTCAGGCACAACTTCCAAACGCCCTTCCTCCGCCAAGCCAGAACTACCAGCCGCCAGTGAACCAATTACAACCAGGAGTACGACAACAGAACATCGCAGCTCAACCACCAATCGGTCAGGTACAATACCCGCACCCTGCTGAACAAACATCTCAAGGCCCTCCAGGCCAGCAGCAGGGACAGCAAACTCAGCCTCTCCAACAACCTAACAGAACCCAACTACAACAGCCAGTCGGACAATACCAAAACTCGGCGATGAGGGGCAGCGCTGGGTCGTACCTCGATGCTAACTTCGTAAGCGATTCTCAACAAGTTGCTGGTCAAAGGCAAGGACAAACCGGACAAGGCTATCCCATGGAACCAGACTATCATTCTAGCGGACCACTGTCGTTTCAAGGTCAAGCAACCCAACCCCCGCCGGCTCTTCAAAATGTTTATAACCGCACACCACCGTCTTCCGGCCCACCGTCGTTAGAACCGTACTCGGGACAAAGTTCACTTCCAGGACAGATCAACAACCCACCACCAGGCCCACAAATGGCACCGCCACAGCAGGGCCCACCAGCACCACCACAACACCATGGTCAGCCACTACAGCAGGGCCCACCACCTTCAGGTCCACCCTCAGGACCTCCTTCCCTACAATATCCAAGCCAGCTTAGCGAACCAGCTGGCCCCTATCCTGGAACACAGCAATCGTGGGGACAACCTCCAAGTGGTAACTACTCGCAGCCAGGTCAACAACCGCCACCCTCATATGCTGGTTATGAACCTGTTCAACAACCATACGGTCAACAAGCACCACAGCAGTACTATGAACAGAATGTCGCCGAAGCTCAGCTTATTTCCTTTGATTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q99LI8	Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Mus musculus OX=10090 GN=Hgs PE=1 SV=2
Q9JJ50	Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Rattus norvegicus OX=10116 GN=Hgs PE=1 SV=1
O14964	Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Homo sapiens OX=9606 GN=HGS PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003063 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Alpha-Helix\|VHS · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00790 all species →	VHS	VHS domain	Repeat	Interproscan
PF12210 all species →	Hrs_helical	Hepatocyte growth factor-regulated tyrosine kinase substrate	Domain	Interproscan
PF01363 all species →	FYVE	FYVE zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000306 all species →	Domain	FYVE zinc finger	Interproscan
IPR002014 all species →	Domain	VHS domain	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR008942 all species →	Homologous_superfamily	ENTH/VHS	Interproscan
IPR024641 all species →	Domain	Hepatocyte growth factor-regulated tyrosine kinase substrate, helical domain	Interproscan
IPR017073 all species →	Family	Hepatocyte growth factor-regulated tyrosine kinase substrate/VPS27	Interproscan
IPR017455 all species →	Domain	Zinc finger, FYVE-related	Interproscan
IPR003903 all species →	Conserved_site	Ubiquitin interacting motif	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46275 all species →	HEPATOCYTE GROWTH FACTOR-REGULATED TYROSINE KINASE SUBSTRATE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin binding	Interproscan
GO:0005769 all species →	Cellular Component	early endosome	Interproscan
GO:0031623 all species →	Biological Process	receptor internalization	Interproscan
GO:0032456 all species →	Biological Process	endocytic recycling	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
K12182	HGS, HRS, VPS27; hepatocyte growth factor-regulated tyrosine kinase substrate	-	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 ENSBQFP00000020328.1 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

37TPM > 0

6Conditions

112.5Max TPM

59.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	55.28	83.98
polyp and skeleton · 31C, 3week	6	6	60.57	105.49
polyp and skeleton · 28C, 3week	6	6	75.92	112.54
polyp and skeleton · 26C, 3week	4	4	55.97	82.59
polyp and skeleton · 28C, 24hr	2	2	50.94	52.93
polyp and skeleton · 31C, 24hr	2	2	63.49	69.38

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
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	83.98
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	76.51
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	72.32
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	66.65
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	66.59
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	64.61
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	63.30
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	60.39
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	56.83
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	52.09
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	46.49
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	45.16
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	44.75
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	42.08
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	37.70
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	30.74
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	29.65
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	105.49
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	93.04
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	59.64
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	41.99
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	31.62
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	31.61
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	112.54
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	101.12
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	84.94
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	66.54
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	47.54
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	42.82
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	82.59
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	56.49
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	44.54
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	40.24
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	52.93
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	48.95
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	69.38
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	57.60

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	6	ENSBQFP00000014822	0.803344739683875
Negatively correlated	82	ENSBQFP00000048497	-0.677593614119563

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 ENSBQFP00000020328, 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 →