Gene detail

Detailed information of ENSBQFP00000052447.1 in Heliopora coerulea

Genomic Location: JASJOG010000529.1:52744...67391
NR annotation: XP_028400576.1, ARF GTPase-activating protein GIT2-like isoform X2 [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000059739

ATGAAGTCGCGAGGAAAGTCGCGGAGTTCAAGCGACATATGTGCTGATTGCAGTGCGCCAGCGCCAGTGTGGGCTTCTATAAACCGTGGTGTGCTTATTTGCAACGACTGCTGCAGCGTTCACCGAAGCCTAGGTAGGCACATTAGCCAGGTTCGGCACCTCAAGCACGGGACATGGAGTCCTTCCCTTCTCAAGATGGTCAAAACTCTTGTGGCCAATGGAGCTAATTCAATTTGGGAGCATTCTTTACTTGATCCCAATCAAATTAAAAGTGGTATAAGAAAGCCTAATCCGAAAGATCCTATGCCAACCAAAGCAGCCTTCATTTGTGCTAAATACCAAATGCTATCCTTTGTTCATCGTTTACCTTGCCGAGATGATGACGAAATATCTACTGCAGATTTGAGTCAGCAACTTCACTCTAGTGTAAGAACAGCCAACCTTGAGACATCACTAAGACTTCTCTCTCTTGGAGCACAACCCAATTATTATTTTCAGGAAAAGGGAAACTGTCCATTACATATTGCTGCAAATGCTGGACAACTGTTACAAGTTGAACTTCTTTGTGTCCATGGAGCAGACCCTTCACTATTGGATAGTGAAGGAAAAGCACCTTTAGATTATGCAATGGATGCTGGCCATATGCAATTGGTAGAAAGATTAATCAACTTACAATGTGAAGTCACAGACAGACTAACATACTATTTATGTGGTAGAACACCAGATCACAAAGATGGACACAAGTTCTTTATCCCAGCAATGGCAAACAGCTCACTGGATTTGTCAGACAACGCAAAACTAGCAAAACAGCAACTACAGTTGCTCAGTAATCATCTTTTTGAAGAGCTGTCGTCTGACGTCTACGATGAAGTTGATCGACGGGAAACTGATGCTATTTGGATAGCAACGCAAAACCACAGCGACTTCGTTAGTGATCGAACAGCCGTGCCATTCCTGCCAGTTAATCCAAGTTACTCGTCAACAAGAAATCAGGGTCGTCAAAAACTCGCTCTGTTTAACGCCCAAGAGTTCTCAACACTGGTTCTTGATATCCTCATTGACGCTCGAAGACGAGAATTGGGTTCACGACTAAATTTAAATGATGAATTTATAGGTACCGAACTGGAGGAAGGAGATGGACATGATTACGACGAGGTCGCTAGTGATGACGGTCAACTTGAGCCTATCAAGGAATCATTTGAGAAAGCAACGATAGAGCATAACAACGAAGAACCTGAACCTATTGAAGATGACAGAGAATTTGTACCAATTGCTCAGTACAAGCAGGTTCAGAAATCCCTATTTGAATCTCAGGAAAGAGTGAACGAGTTATCTCGAGAAAACGACAGTCTTTTAAAAGAGGTCACAGTATTGAAAACAGTGGTGCAAACTTTAAAAGAAGAACTGAAGTCACAGGGGGCAGATTCAGTTTTCTCTCCTGGTTATGATTCGGGAAAAGATCAACGTTACTCCAGTGCGGAAAATGCTCTCGATGAACAGAATGGAGGAGAGGAATCAGAAGACGAATTGGTCGATGTGAATGACATCAGAAAATACGAAGCCCCCGGTGCCTTAATTCTCCAGTCGAATAAACAAAACGAATCAGTCGAGTCCGAGAGAAGCGATTCGACGCCTACGAATGTGTACGATAATTTACCGAGCCCACCTCCGAAGTCCAGTGACGACGATCCTTATCTTCACGTGGACGAGGACGAAAATTTAACTGATTCGGATGAGAATATGAAACAAGAACTGGAAGATGAGGCTCGACGAATAATGGTTGAGGCAGACAGTATTATCAGTCACTCTCAGCCTCGTCTTACGAAAGAAGAGGTTGTTGTTTGTACCGAACAAATCACCAAACGTATCCAAGAACTCTTACTGGCCGCCCAGGCAGGAAAACATAACAGttttattccgtGTTCAAATAATATCTTGTCCGCTGTTGAAAGCATGACGTCGTTGTTCCCTGAGAATCCACCAATGATGGCTGTTCGCGCAGCACTTGACTTAATGAACGTCAGTGCCGTCCGCTTGCAAGTGGAATGTAAGAACACGGTATTGCCTGACAACTCCATCGATCTCGCCCAGCTCACCCAGCAAGTCATCCAGTGCGCCTACGATGTTGCGAAGGCCGCTAAAGAATTGGTTACTACCACAGCTTATTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q14161	ARF GTPase-activating protein GIT2 OS=Homo sapiens OX=9606 GN=GIT2 PE=1 SV=2
Q66H91	ARF GTPase-activating protein GIT2 OS=Rattus norvegicus OX=10116 GN=Git2 PE=1 SV=1
Q9JLQ2	ARF GTPase-activating protein GIT2 OS=Mus musculus OX=10090 GN=Git2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004420 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08518 all species →	GIT_SHD	Spa2 homology domain (SHD) of GIT	Family	Interproscan
PF01412 all species →	ArfGap	Putative GTPase activating protein for Arf	Domain	Interproscan
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF12205 all species →	GIT1_C	G protein-coupled receptor kinase-interacting protein 1 C term	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR047161 all species →	Family	ARF GTPase-activating protein Git-like	Interproscan
IPR013724 all species →	Domain	GIT, Spa2 homology (SHD) domain	Interproscan
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR001164 all species →	Domain	Arf GTPase activating protein	Interproscan
IPR037278 all species →	Homologous_superfamily	ARFGAP/RecO-like zinc finger	Interproscan
IPR022018 all species →	Domain	ARF GTPase-activating protein GIT1, C-terminal	Interproscan
IPR038508 all species →	Homologous_superfamily	ArfGAP domain superfamily	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46097 all species →	G PROTEIN-COUPLED RECEPTOR KINASE INTERACTING ARFGAP	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0007420 all species →	Biological Process	brain development	Interproscan
GO:0008277 all species →	Biological Process	regulation of G protein-coupled receptor signaling pathway	Interproscan
GO:0031267 all species →	Molecular Function	small GTPase binding	Interproscan
GO:0032012 all species →	Biological Process	regulation of ARF protein signal transduction	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12487	GIT2; G protein-coupled receptor kinase interactor 2	-	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 ENSBQFP00000052447.1 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

60.0Max TPM

32.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	42.96	59.98
polyp and skeleton · 31C, 3week	6	6	23.99	31.11
polyp and skeleton · 28C, 3week	6	5	21.28	36.23
polyp and skeleton · 26C, 3week	4	3	26.52	54.27
polyp and skeleton · 28C, 24hr	2	2	24.57	28.61
polyp and skeleton · 31C, 24hr	2	1	18.31	36.63

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
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	59.98
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	52.20
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	50.93
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	50.69
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	47.69
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	47.64
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	44.20
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	42.97
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	42.46
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	42.21
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	41.07
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	39.11
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	37.64
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	36.70
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	35.37
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	33.99
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	25.52
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	31.11
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	29.23
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	24.11
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	22.84
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	19.64
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	17.04
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	36.23
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	29.69
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	23.30
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	19.52
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	18.96
SRR5949849	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	54.27
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	28.88
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	22.95
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	0.00
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	28.61
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	20.52
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	36.63
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	18	ENSBQFP00000046748	0.889104901691515
Negatively correlated	40	ENSBQFP00000052045	-0.795260532778497

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 ENSBQFP00000052447, 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 →