Gene detail

Detailed information of ENSBQFP00000017346.1 in Heliopora coerulea

Genomic Location: JASJOG010000046.1:1067518...1093772
NR annotation: XP_028410851.1, rab GDP dissociation inhibitor beta-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7YQM0	Rab GDP dissociation inhibitor alpha OS=Pongo pygmaeus OX=9600 GN=GDI1 PE=2 SV=1
P50398	Rab GDP dissociation inhibitor alpha OS=Rattus norvegicus OX=10116 GN=Gdi1 PE=1 SV=1
P21856	Rab GDP dissociation inhibitor alpha OS=Bos taurus OX=9913 GN=GDI1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002806 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00996 all species →	GDI	GDP dissociation inhibitor	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000806 all species →	Family	Rab GDI protein	Interproscan
IPR018203 all species →	Family	GDP dissociation inhibitor	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11787 all species →	RAB GDP-DISSOCIATION INHIBITOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005093 all species →	Molecular Function	Rab GDP-dissociation inhibitor activity	Interproscan
GO:0015031 all species →	Biological Process	protein transport	Interproscan
GO:0005092 all species →	Molecular Function	GDP-dissociation inhibitor activity	Interproscan
GO:0007264 all species →	Biological Process	small GTPase-mediated signal transduction	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	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
K17255	GDI1_2; Rab GDP dissociation inhibitor	-	Exosome	ko04147	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000017346.1 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

604.0Max TPM

324.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	472.33	604.01
polyp and skeleton · 31C, 3week	6	6	170.76	223.88
polyp and skeleton · 28C, 3week	6	5	197.77	304.10
polyp and skeleton · 26C, 3week	4	4	269.76	327.43
polyp and skeleton · 28C, 24hr	2	2	171.99	189.23
polyp and skeleton · 31C, 24hr	2	2	174.93	194.09

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	604.01
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	590.97
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	560.50
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	553.52
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	552.90
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	500.95
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	497.87
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	486.28
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	483.34
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	478.00
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	473.14
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	423.56
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	421.67
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	411.04
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	382.00
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	338.24
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	271.66
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	223.88
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	190.68
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	184.79
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	177.64
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	129.22
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	118.33
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	304.10
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	236.16
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	233.73
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	230.21
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	182.41
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	0.00
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	327.43
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	270.32
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	263.20
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	218.10
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	189.23
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	154.75
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	194.09
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	155.78

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	38	ENSBQFP00000019155	0.932907363799513
Negatively correlated	24	ENSBQFP00000013805	-0.855310311151512

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 ENSBQFP00000017346, 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 →