Detailed information of ENSBQFP00000020642.1 in Heliopora coerulea

Genomic Location: JASJOG010000045.1:1168025...1190589
NR annotation: XP_028396491.1, zinc transporter ZIP6-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 accessionDescription
Q6PEH9Zinc transporter ZIP10 OS=Danio rerio OX=7955 GN=slc39a10 PE=2 SV=2
Q6P5F6Zinc transporter ZIP10 OS=Mus musculus OX=10090 GN=Slc39a10 PE=1 SV=1
Q6L8F3Zinc transporter ZIP6 OS=Danio rerio OX=7955 GN=slc39a6 PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000456 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF18292
all species →		ZIP4_domainZinc transporter ZIP4 domainDomainInterproscan
PF02535
all species →		ZipZIP Zinc transporterFamilyInterproscan
PF21116
all species →		EF-hand_ZipZip protein EF-handDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR050799
all species →		FamilyZinc Iron Protein (ZIP) TransporterInterproscan
IPR041137
all species →		DomainZinc transporter ZIP4, N-terminalInterproscan
IPR003689
all species →		FamilyZinc/iron permeaseInterproscan
IPR049406
all species →		DomainZinc transporter ZIP4/12, EF-handInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR12191
all species →		SOLUTE CARRIER FAMILY 39Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005385
all species →		Molecular Functionzinc ion transmembrane transporter activityInterproscan
GO:0005887
all species →		Cellular Componentplasma membraneInterproscan
GO:0006875
all species →		Biological Processobsolete intracellular metal ion homeostasisInterproscan
GO:0071578
all species →		Biological Processzinc ion import across plasma membraneInterproscan
GO:0140410
all species →		Molecular Functionmonoatomic cation:bicarbonate symporter activityInterproscan
GO:0016020
all species →		Cellular ComponentmembraneInterproscan
GO:0030001
all species →		Biological Processmetal ion transportInterproscan
GO:0046873
all species →		Molecular Functionmetal ion transmembrane transporter activityInterproscan
GO:0055085
all species →		Biological Processtransmembrane transportInterproscan

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 ENSBQFP00000020642.1.

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000020642.1 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
134.7Max TPM
42.9Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
Whole coral 17 17 54.09 88.09
polyp and skeleton · 31C, 3week 6 6 31.82 39.34
polyp and skeleton · 28C, 3week 6 5 39.99 134.66
polyp and skeleton · 26C, 3week 4 3 35.74 88.02
polyp and skeleton · 28C, 24hr 2 2 29.94 36.37
polyp and skeleton · 31C, 24hr 2 1 17.03 34.07

Per sample · hover a bar for the full sample record

Show the sample table (37 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
ERR6178781 Whole coral Whole coral not recorded not recorded ERP120267 88.09
ERR6178771 Whole coral Whole coral not recorded not recorded ERP120267 86.08
ERR6178772 Whole coral Whole coral not recorded not recorded ERP120267 66.72
ERR6178783 Whole coral Whole coral not recorded not recorded ERP120267 66.05
ERR6178387 Whole coral Whole coral not recorded not recorded ERP120267 64.47
ERR6178782 Whole coral Whole coral not recorded not recorded ERP120267 60.71
ERR6178389 Whole coral Whole coral not recorded not recorded ERP120267 53.98
ERR6178776 Whole coral Whole coral not recorded not recorded ERP120267 53.01
ERR6178779 Whole coral Whole coral not recorded not recorded ERP120267 52.14
ERR6178770 Whole coral Whole coral not recorded not recorded ERP120267 52.03
ERR6178780 Whole coral Whole coral not recorded not recorded ERP120267 51.57
ERR6178777 Whole coral Whole coral not recorded not recorded ERP120267 46.27
ERR6178388 Whole coral Whole coral not recorded not recorded ERP120267 45.18
ERR6178775 Whole coral Whole coral not recorded not recorded ERP120267 39.94
ERR6178778 Whole coral Whole coral not recorded not recorded ERP120267 36.96
ERR6178773 Whole coral Whole coral not recorded not recorded ERP120267 31.99
ERR6178774 Whole coral Whole coral not recorded not recorded ERP120267 24.34
SRR12578066 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 39.34
SRR12587800 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 35.17
SRR12587799 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 32.32
SRR12578068 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 32.14
SRR12587804 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 30.20
SRR12578065 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 21.76
SRR5949849 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 134.66
SRR12587807 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 44.13
SRR12587802 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 27.64
SRR12587808 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 22.65
SRR12587803 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 10.85
SRR12578067 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 0.00
SRR12587801 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 88.02
SRR12587805 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 27.77
SRR12587798 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 27.16
SRR12587806 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 0.00
SRR12578063 polyp and skeleton · 28C, 24hr polyp and skeleton not recorded 28C, 24hr SRP115860 36.37
SRR5949850 polyp and skeleton · 28C, 24hr polyp and skeleton not recorded 28C, 24hr SRP115860 23.51
SRR12578064 polyp and skeleton · 31C, 24hr polyp and skeleton not recorded 31C, 24hr SRP115860 34.07
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.

DirectionPartnersMost correlated partnerPCC
Positively correlated26ENSBQFP000000060380.846529687398181
Negatively correlated14ENSBQFP00000025571-0.725782807421559

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 ENSBQFP00000020642, 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.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch 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 foundopen →
Expression heatmapDraw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.readyopen →
Gene family / orthogroupLook 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 analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
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