Detailed information of ENSBQFP00000031444 in Heliopora coerulea

Genomic Location: JASJOG010000113.1:969231...1030186
NR annotation: XP_028398210.1, receptor-type tyrosine-protein phosphatase alpha-like isoform X2 [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
P18433Receptor-type tyrosine-protein phosphatase alpha OS=Homo sapiens OX=9606 GN=PTPRA PE=1 SV=3
Q64487Receptor-type tyrosine-protein phosphatase delta OS=Mus musculus OX=10090 GN=Ptprd PE=1 SV=3
Q03348Receptor-type tyrosine-protein phosphatase alpha OS=Rattus norvegicus OX=10116 GN=Ptpra PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000060 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13895
all species →		Ig_2Immunoglobulin domainDomainInterproscan
PF00102
all species →		Y_phosphataseProtein-tyrosine phosphataseDomainInterproscan
PF00041
all species →		fn3Fibronectin type III domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR016130
all species →		Active_siteProtein-tyrosine phosphatase, active siteInterproscan
IPR003961
all species →		DomainFibronectin type IIIInterproscan
IPR007110
all species →		DomainImmunoglobulin-like domainInterproscan
IPR000242
all species →		DomainTyrosine-specific protein phosphatase, PTPase domainInterproscan
IPR036116
all species →		Homologous_superfamilyFibronectin type III superfamilyInterproscan
IPR029021
all species →		Homologous_superfamilyProtein-tyrosine phosphatase-likeInterproscan
IPR013783
all species →		Homologous_superfamilyImmunoglobulin-like foldInterproscan
IPR036179
all species →		Homologous_superfamilyImmunoglobulin-like domain superfamilyInterproscan
IPR003595
all species →		DomainProtein-tyrosine phosphatase, catalyticInterproscan
IPR000387
all species →		DomainTyrosine-specific protein phosphatases domainInterproscan
IPR003599
all species →		DomainImmunoglobulin subtypeInterproscan
IPR050348
all species →		FamilyProtein-Tyrosine PhosphataseInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR19134
all species →		RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0016311
all species →		Biological ProcessdephosphorylationInterproscan
GO:0005515
all species →		Molecular Functionprotein bindingInterproscan
GO:0004725
all species →		Molecular Functionprotein tyrosine phosphatase activityInterproscan
GO:0006470
all species →		Biological Processprotein dephosphorylationInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K16667PTPRG; receptor-type tyrosine-protein phosphatase gammaEC:3.1.3.48
Protein phosphatases and associated proteinsko01009deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000031444 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
206.5Max TPM
82.3Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
Whole coral 17 17 83.70 133.47
polyp and skeleton · 31C, 3week 6 6 61.09 116.41
polyp and skeleton · 28C, 3week 6 6 105.54 206.51
polyp and skeleton · 26C, 3week 4 4 67.37 92.78
polyp and skeleton · 28C, 24hr 2 2 120.95 123.39
polyp and skeleton · 31C, 24hr 2 2 54.71 64.65

Per sample · hover a bar for the full sample record

Show the sample table (37 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
ERR6178782 Whole coral Whole coral not recorded not recorded ERP120267 133.47
ERR6178777 Whole coral Whole coral not recorded not recorded ERP120267 132.74
ERR6178388 Whole coral Whole coral not recorded not recorded ERP120267 130.70
ERR6178387 Whole coral Whole coral not recorded not recorded ERP120267 118.97
ERR6178771 Whole coral Whole coral not recorded not recorded ERP120267 115.14
ERR6178775 Whole coral Whole coral not recorded not recorded ERP120267 97.44
ERR6178776 Whole coral Whole coral not recorded not recorded ERP120267 94.38
ERR6178781 Whole coral Whole coral not recorded not recorded ERP120267 93.45
ERR6178783 Whole coral Whole coral not recorded not recorded ERP120267 69.62
ERR6178778 Whole coral Whole coral not recorded not recorded ERP120267 60.83
ERR6178780 Whole coral Whole coral not recorded not recorded ERP120267 58.59
ERR6178779 Whole coral Whole coral not recorded not recorded ERP120267 57.04
ERR6178773 Whole coral Whole coral not recorded not recorded ERP120267 56.23
ERR6178389 Whole coral Whole coral not recorded not recorded ERP120267 54.68
ERR6178772 Whole coral Whole coral not recorded not recorded ERP120267 54.30
ERR6178770 Whole coral Whole coral not recorded not recorded ERP120267 49.51
ERR6178774 Whole coral Whole coral not recorded not recorded ERP120267 45.72
SRR12578065 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 116.41
SRR12587804 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 75.77
SRR12587800 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 61.77
SRR12578066 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 44.84
SRR12578068 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 35.52
SRR12587799 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 32.22
SRR12578067 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 206.51
SRR12587802 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 138.54
SRR5949849 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 86.27
SRR12587807 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 85.19
SRR12587808 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 64.67
SRR12587803 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 52.08
SRR12587801 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 92.78
SRR12587798 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 70.75
SRR12587805 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 55.09
SRR12587806 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 50.85
SRR12578063 polyp and skeleton · 28C, 24hr polyp and skeleton not recorded 28C, 24hr SRP115860 123.39
SRR5949850 polyp and skeleton · 28C, 24hr polyp and skeleton not recorded 28C, 24hr SRP115860 118.52
SRR5949848 polyp and skeleton · 31C, 24hr polyp and skeleton not recorded 31C, 24hr SRP115860 64.65
SRR12578064 polyp and skeleton · 31C, 24hr polyp and skeleton not recorded 31C, 24hr SRP115860 44.77

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 correlated1ENSBQFP000000257770.71443224781968
Negatively correlated69ENSBQFP00000020094-0.60746990739285

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.

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 →
TOP