Gene detail

Detailed information of ENSBQFP00000012395.1 in Heliopora coerulea

Genomic Location: JASJOG010000016.1:2300313...2390000
NR annotation: XP_028405592.1, plexin-A4-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000013761

ATGTTTGCTCCAGGAATTCAAGATCATAGGGTGTTTGTTTGGATGTATCTTGTTATATTTGCTACAACTTCTGCAGTAAACGTTTTTGAGTCAGGAAATGAGTTTAGAAATTTGGTGGTGGACAAGATCACTGGTGAACTATATGTTGGAGCAGTCAATTCTATATACAGACTTAACAATAAGCTAGGTATGATTGCAGAAAAGAACACTAAATGTACTCCAAAATGTGACCAAAGATCATCTGAAGATAAATCAGCCAACGTCAACCAGATTTTACTTATTGATCGTTCACCTCCTGCTAAACTTTTAGCATGTGGAAATGCTGGTGGCGGAACTTGCGTGTTTTTAAACATGAGCTCACTGTCAATATATGGCTGTAAACTACCGGTGCCCGAGATTGTTTCATCTCGGCCTAAATATCCAAGCGTTGCTTTTATGGATCCTGTTAACGATTTGATGGTTGTTGCTAGTACCAATATTCTCAGAAGAACACCCTCATTTGCTCACATTGCAGCATATGAGAGGgatgacagtaaaagatgtTTTACTCGCGTTGCTGGGTTGGATTTGGAATCAGAGGAAAACACACCTTTGTACATTTTGGGTGCAATTGTGGGCAAGTTCAGATATCTTTTCACTGTTGCTAACCAAGGGAGCACAGTTGTCAGACTTTGTGAACATTTTACAAATCCCTCCAGAAAAGCGATTTTCTCTTATAAGGAAATGCCACTGAATTGTGTTGGTGAGGATGGTGGAAACTTTATACAACTTAAAGTGGCCAGAATTTTTCAACCTGGCAGGAAACTGGCGAAGGCTTTTGGAATTTCTGTCAATGATTCAGTGGTAGTTGGAGTTTTTCGCAAGTCTGTTAGTTCGTTAGAGTCTGCAGTTTGTGTTTATTCGTTTAAGCAGATCAACAATTTCTTTTGGTCGAATATCAAAGATTGCTTTAGCGGTTCACGTCCAGGTATAAAAAATTGGTATACTAAAGCGCCATGTCAAAAAGAAACTCCGCGGAATTGTACTGATGAAAATACACGAAATCCGACACTAACAGGACGCATTCCGTGCTCGGCAAATGCAGTTGTAACATGTGGTCAGTGTAATTTGACTGCCTCTTTGGATGTTACGGTGTACAGAGATGAGACTATTGCCTTTATAGGAACAGGAACTGGAAAGCTGGCCAAGGTTGTGATTGATTCAAATACTTCAGGGAGAATGTACAAACTTTCCTCGAGAATTGATCAAAACATTGTTTCTGTTGGTTTGGAACCAAATGGAACAAGTCTTTACATTATGGGAACGAAGAAGATTATTAAGATTCCCGTAGAGGAGTGCAGTAACAGTACAACCTGCAAAAGTTGTGTAGGAACAGGAGATCCATATTGCGGATGGTGTACGTTGTATGCTAAatgtaCGACCCAAAGCCAATGTCAAGATGCCTCATCTGTCTTAGGTTACGTGCAGAATATAGACCAGTGCATCAATATTACGGACGTTTATCCAAGAGAACTGCCTTTGTCTGAATCCCATCAGAAGGTAAAAGTTTCAATTAGTAATCTACCTGAGAGGAATGTCCTTGATCCCTATGATTGCTATATCGGCAGCAAGAACGTATCATCAACCCTTGTAAATAAGACGACGTTGGTTTGTTTGGCCCCGCAATCTTCTCAGTTGCCTACACCAAGTTCTGAGACAGGTAAAACGTATGTGGAACTGGCAGTATATTCTGtggaaaccaaacaaaaaattgtatcCACGACTGTGGCATTCTATAACTGCACGGCAATATCAAGTTGTTTGAAGTGCACAACTGGGTTACTCAATTGTTCATGGTGCCATTATGAAGCCGCTTGTGTTGGTGATGTGAGATCAAGTTGTCCAGATTCCTTTGCACCATGGGTATCAGACCAATCTTCGCACCAATGTCCATTTTTGAATTCTCAAACTGTATATGTTCCTGCGGGCATCCAGAGAAAAGTCGTCGTGAATGCGACGCAGCTACCAGAGCCCAAGATTTCTAATGACTACAAGTGTATCATTGAGATAGTTCAGCAGTCCTTCGCAGTTCAGGCCTGGTGGAATAGTAGTACAAGTCTAACCTGTGGACCTAAAATATACAACTATTCATACTATAAAGAAAGTGTTCTTGGCCATCTTCGGGTTGAACTGGGAAAAAGCACCATCAATCCTGTGAACAAGAGTATCCCAGTTTATTTATACAAATGCGAAGCTGCTGCCAAACTTTGTGGTAGATGTGTCGTATTTAAGAAAACTCAATATAGATGTGGTTGGTGCTCTGAATCACGGTCGTGCAGTGTAAAAGATGCTTGTCCTGCACAATGGGTTGAACCAAACGGAGAGTGTAAAGACAGACCAGCTATCGAGTCGttttatcCTAAATCTGGTCCTGTGGCAGGAAACACAAAACTTGAAATTAATGGAACAGAGTTTGGTCGTAAATGGGAAGATGTGAGAGGGGTTTCTATTGGTGGTGTGTCCTGTAATGTTTCCAAAAACGATTACGTAATTGCAAAACGTATCGTCTGTTACACCAGTAGCTCTTCCAAAGGACCATTTTCAAGTAAAATAAGTGTTATTGTGTTGGGGAAGGAAGGTGTTTCAAATGAAGAATTTCGTTATCAAGTACCTGAAGTAGACGACTTTAAACCTAAAATAGGACCAGTATCAggtggaacattagtaaatatAACTGGTAAATACCTGGATACAGGAAGATATATTAATGCGTCTATTGGTGGATTAGAATGCAAACTTCGCGATGGGAGACGAAGTGAAAGGCAAATTCTTTGTGACACTCCAAGTGTAACAACGAGACGACGTAGATCTGTTGACACTGTAAAAAGTGGAACTCTAGTTGTGACTTTCGACGGCTTCAGACCCGAACGTCCTTCCAAGGAAATATTTCAGTATGTGCCTGATCCCAACATTACGGATATTACACCAAAATTCTCTTTTCCCAGTTCGAATATTCCGCTGAATGTAACTGGAACAAACTTGTATGCTGTATATTTCCCCCAAATTGAACTTCAATTCAAGAATAAAACATTCAGAAAGCCTTGTGAAAGACCAGCTGACGATCACATGCTTTGTGTGTTACCAAATGTGTCTTCAATTCTTACCGATGAAGATATGCACGTAGCCAAGATTTCCTTGTACTTAGATGGCGTTACGAAATGGAGAGATTTGAGCAATTATCCTGAATTCGGctcaattaaattttttcctgatCCTGCAATAACCCCGTTTACTGAAGTATATGTCTTAAAGGGTGATGTTTTAGAGCTTCAGGGAAAAAATCTCGTGGCGTCAGGGAAAGAAGATCTGGTACAGTTTGTCATCACTGTTGGTGGCCAAGTCTGCAATATAACGAGCAAACAGAAGAACATTATATATTGCACTGCCCCGAAACGATCGTCGCTACCTGAGCTTGATAGTTACGATGTCTTGGTGAATGTTACTTCAAGTTCACTCGTTTTTCATGTTGGAAAACTTACGTACGACGTCGTAAATGAGAAGAAAGGGTCAATTAGTCTCGTCATTATTTACGGTATCGCTGGTGGTGGCGGAGCAGTGTTATTGCTGTTTGTTATTTTAATGTTCTTTTTGTACCGACGTAAGAGAAAACAGCAACGTCAAACGGAGAGGACGTTCGAAATGCAGATTAACACTTTAGAGTCAAAGGTAGCCAAGGAATGTAAAGAAGCTTTTGCTGAACTCCAGACGGACATGACGGACTTCACGAGCGATCTTGGTGGAGGAGGCAtccatttctttgatttcaAGCACTATGCTGCGCGTGTACTGTTTCCTGGAGTCGAGGAGCACGTGGTGATGGAAGAAAAGCGGGCACCAGAAAGTCCCCACTGGGAAGAAGCTCTTCGAACATTTTCTCAGTTAATTGGCAATAAAAATTTCCTCTTAATTTTTATAAGAACATTGGAAAATCAGGAGCAGTTCAAAATGCAAGATAGATGTAATGTTGCTTCCCTGCTCGTCGTCGCGTTACAAAGTAAAATGGAGTACTGTACCGAGATTTTGCAGCACCTTCTAGCTGAGCTGATTCGGAAATCAATGTCGAAAAGTCACCCAAAGCTTTTGCTTCGAAGGACCGAATGTATTGCGGAGAAGTTGCTGACGAACTGGTTGACGTTTACCATGTCAAGTTTTATCAAGGATAAAGCTGGTAAACCGCTCTTCATGCTATACAAGGCAATCAGGTTCCAGATTGAGAAAGGGCCCGTTGATGCTATTACGAATGAGGCACGCTATTCACTCAGTGAGGATAAACTACTGAGACAGAGCATTGAATACAATACCCTGATGGTCACAGTTGAGTTTGAGGATAACCCGCCGGTGCAAGTTGAAGTTCTCGATTCAGACACCGTTAGTCAAGCTAAAGACAAGATCATGGAAGTTTTGTTCAAGAATATCCCCTATTCTTGCCGGATTACCAAAGACGAACTGAACCTAAAGTGGGTGGAAAGCCCTTCCAAGCATAGAATTTTGAAAGACGAGGATTCAACTAGCGTTAAAGAAGGTGACTGGAAGAAAATCAACACTCTGTTACATTATGAAATACCCGACGGAACTTGTTTACGGCTTGTAAAGCGTTTTGCATCACCATTTGATACCTCAGAGTTTCATTCAAGTTTGCCAAAGATCTTTCACAGTCCTTCGACTTCCAGCAATCAATCTATCATTCGCAGAAGTCGCACCAACATTAATGATGCTGATATCAGGCCTTGGCATTTGACCAAACCTATTGAATTCGTGCAGGAAAGAGATGATCCACGTCATAGCAAGTTGTTGTCAGAAATTTATCTGACGCGATTACTGAGCACGAAGGGAATATTGCAACAATACGTCGACGATCTCTTTGATGCCATATTTCCGTCCTTCCGTAAAAACGAGAGGCCACCATTGCCAATTAAGTTTCTCTTCGACTTCCTTGATCAACAAGCAGAGGAACTAAATATTACCGATCCCGAAGTACTGCGTACATGGAAAAACAACAGCTTACCGCTCAGGTTCTGGGTAAACCTCATCAAGAACCCCAACTTTTTGTTTGACGTGTATAAAGCACCTATCGTAGATTCATGTCTTACAGTCATTGCTCAGCTGCTCATGGATGCTTGCTCTGTCTCAGAACGTAGACTTGGAAAGGATTCACCGTCTAACAAGCTTCTATATGCCAAAGAAATTCCAGCCTACAGACAAAAAGTCGCAAGgTTTTACGAGGACATGTCTGACTCAACTCCGTTAACAGAAGTGGAAgtcgaaaatttcttttccactCATTATATTGAAGATTTCAATGTTGACAATGCTCTGAAAGAACTCTACAAATATGCTGCTAAATACCAGGATGAGCTTCAAGAAGCTTTAGAGGACTCTCGCTACCCTCAACTTGCCAGCAAACTTGAACATGTGGTGGCCTGCTTTTCAGATGACTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6BEA0	Plexin-A4 OS=Danio rerio OX=7955 GN=plxna4 PE=2 SV=1
Q80UG2	Plexin-A4 OS=Mus musculus OX=10090 GN=Plxna4 PE=1 SV=3
B0S5N4	Plexin A3 OS=Danio rerio OX=7955 GN=plxna3 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001537 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01437 all species →	PSI	Plexin repeat	Family	Interproscan
PF18020 all species →	TIG_2	TIG domain found in plexin	Domain	Interproscan
PF20170 all species →	Plexin_RBD	Plexin cytoplasmic RhoGTPase-binding domain	Domain	Interproscan
PF01833 all species →	TIG	IPT/TIG domain	Domain	Interproscan
PF17960 all species →	TIG_plexin	TIG domain	Domain	Interproscan
PF01403 all species →	Sema	Sema domain	Repeat	Interproscan
PF08337 all species →	Plexin_cytopl	Plexin cytoplasmic RasGAP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002165 all species →	Repeat	Plexin repeat	Interproscan
IPR014756 all species →	Homologous_superfamily	Immunoglobulin E-set	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR041362 all species →	Domain	Plexin, TIG domain 2	Interproscan
IPR002909 all species →	Domain	IPT domain	Interproscan
IPR046800 all species →	Domain	Plexin, cytoplasmic RhoGTPase-binding domain	Interproscan
IPR001627 all species →	Domain	Sema domain	Interproscan
IPR036352 all species →	Homologous_superfamily	Sema domain superfamily	Interproscan
IPR031148 all species →	Family	Plexin family	Interproscan
IPR041019 all species →	Domain	Plexin, TIG domain 1	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR016201 all species →	Domain	PSI domain	Interproscan
IPR013548 all species →	Domain	Plexin, cytoplasmic RasGAP domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22625 all species →	PLEXIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0017154 all species →	Molecular Function	semaphorin receptor activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0002116 all species →	Cellular Component	semaphorin receptor complex	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0030334 all species →	Biological Process	regulation of cell migration	Interproscan
GO:0071526 all species →	Biological Process	semaphorin-plexin signaling pathway	Interproscan
GO:1902287 all species →	Biological Process	semaphorin-plexin signaling pathway involved in axon guidance	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 ENSBQFP00000012395.1.

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000012395.1 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

140.2Max TPM

56.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	69.27	140.16
polyp and skeleton · 31C, 3week	6	6	34.61	44.27
polyp and skeleton · 28C, 3week	6	6	54.90	111.05
polyp and skeleton · 26C, 3week	4	4	49.65	95.38
polyp and skeleton · 28C, 24hr	2	2	40.93	45.31
polyp and skeleton · 31C, 24hr	2	2	43.43	53.48

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
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	140.16
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	95.54
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	92.40
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	74.57
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	70.11
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	69.28
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	67.13
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	66.40
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	61.99
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	57.77
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	57.37
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	57.33
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	55.51
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	54.47
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	52.69
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	52.67
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	52.29
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	44.27
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	43.81
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	41.82
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	31.85
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	27.61
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	18.31
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	111.05
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	61.70
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	48.02
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	42.69
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	38.35
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	27.60
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	95.38
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	42.14
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	35.79
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	25.28
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	45.31
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	36.54
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	53.48
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	33.38

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	4	ENSBQFP00000004320	0.761311467210635
Negatively correlated	22	ENSBQFP00000030905	-0.709888747498086

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 ENSBQFP00000012395, 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 →