Detailed information of ENSBQFP00000047802 in Heliopora coerulea

Genomic Location: JASJOG010000277.1:156371...160215
NR annotation: XP_028406154.1, 40S ribosomal protein S20 [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
P23403Small ribosomal subunit protein uS10 OS=Xenopus laevis OX=8355 GN=rps20 PE=1 SV=1
Q3ZBH8Small ribosomal subunit protein uS10 OS=Bos taurus OX=9913 GN=RPS20 PE=1 SV=1
P60866Small ribosomal subunit protein uS10 OS=Homo sapiens OX=9606 GN=RPS20 PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0008810 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00338
all species →		Ribosomal_S10Ribosomal protein S10p/S20eDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR001848
all species →		FamilySmall ribosomal subunit protein uS10Interproscan
IPR005729
all species →		FamilySmall ribosomal subunit protein uS10, eukaryotic/archaealInterproscan
IPR027486
all species →		DomainSmall ribosomal subunit protein uS10 domainInterproscan
IPR036838
all species →		Homologous_superfamilySmall ribosomal subunit protein uS10 domain superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11700
all species →		30S RIBOSOMAL PROTEIN S10 FAMILY MEMBERInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003735
all species →		Molecular Functionstructural constituent of ribosomeInterproscan
GO:0005840
all species →		Cellular ComponentribosomeInterproscan
GO:0006412
all species →		Biological ProcesstranslationInterproscan
GO:0015935
all species →		Cellular Componentsmall ribosomal subunitInterproscan
GO:0022627
all species →		Cellular Componentcytosolic small ribosomal subunitInterproscan

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
K02969RP-S20e, RPS20; small subunit ribosomal protein S20e-Ribosomeko03011deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000047802 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
1,011.9Max TPM
487.3Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
Whole coral 17 17 688.44 1,011.90
polyp and skeleton · 31C, 3week 6 6 246.99 525.69
polyp and skeleton · 28C, 3week 6 6 330.50 731.22
polyp and skeleton · 26C, 3week 4 4 283.38 432.94
polyp and skeleton · 28C, 24hr 2 2 444.18 561.74
polyp and skeleton · 31C, 24hr 2 2 419.11 628.61

Per sample · hover a bar for the full sample record

Show the sample table (37 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
ERR6178777 Whole coral Whole coral not recorded not recorded ERP120267 1,011.90
ERR6178782 Whole coral Whole coral not recorded not recorded ERP120267 918.62
ERR6178771 Whole coral Whole coral not recorded not recorded ERP120267 845.98
ERR6178779 Whole coral Whole coral not recorded not recorded ERP120267 843.03
ERR6178775 Whole coral Whole coral not recorded not recorded ERP120267 734.02
ERR6178389 Whole coral Whole coral not recorded not recorded ERP120267 716.37
ERR6178783 Whole coral Whole coral not recorded not recorded ERP120267 707.98
ERR6178772 Whole coral Whole coral not recorded not recorded ERP120267 702.41
ERR6178388 Whole coral Whole coral not recorded not recorded ERP120267 684.56
ERR6178387 Whole coral Whole coral not recorded not recorded ERP120267 673.35
ERR6178778 Whole coral Whole coral not recorded not recorded ERP120267 667.87
ERR6178776 Whole coral Whole coral not recorded not recorded ERP120267 660.53
ERR6178774 Whole coral Whole coral not recorded not recorded ERP120267 553.88
ERR6178781 Whole coral Whole coral not recorded not recorded ERP120267 553.37
ERR6178770 Whole coral Whole coral not recorded not recorded ERP120267 548.36
ERR6178773 Whole coral Whole coral not recorded not recorded ERP120267 449.89
ERR6178780 Whole coral Whole coral not recorded not recorded ERP120267 431.30
SRR12587800 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 525.69
SRR12587799 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 294.85
SRR12578065 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 247.89
SRR12578066 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 233.12
SRR12587804 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 147.89
SRR12578068 polyp and skeleton · 31C, 3week polyp and skeleton not recorded 31C, 3week SRP115860 32.48
SRR12587808 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 731.22
SRR12578067 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 341.07
SRR5949849 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 333.06
SRR12587803 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 274.48
SRR12587807 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 237.51
SRR12587802 polyp and skeleton · 28C, 3week polyp and skeleton not recorded 28C, 3week SRP115860 65.63
SRR12587801 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 432.94
SRR12587806 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 340.07
SRR12587805 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 194.79
SRR12587798 polyp and skeleton · 26C, 3week polyp and skeleton not recorded 26C, 3week SRP115860 165.71
SRR12578063 polyp and skeleton · 28C, 24hr polyp and skeleton not recorded 28C, 24hr SRP115860 561.74
SRR5949850 polyp and skeleton · 28C, 24hr polyp and skeleton not recorded 28C, 24hr SRP115860 326.62
SRR5949848 polyp and skeleton · 31C, 24hr polyp and skeleton not recorded 31C, 24hr SRP115860 628.61
SRR12578064 polyp and skeleton · 31C, 24hr polyp and skeleton not recorded 31C, 24hr SRP115860 209.61

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 correlated16ENSBQFP000000279910.907665509217354
Negatively correlated124ENSBQFP00000019621-0.780944827002638

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 →
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