Detailed information of g35040.t1 in Montipora capitata

Genomic Location: xpSc0028484:85407...106457
NR annotation: XP_015764231.1, PREDICTED: protein quaking-like isoform X2 [Acropora digitifera]
Species Montipora capitata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
No sequence record for g35040.t1 in MCAPI (the gene ID may belong to a different isoform naming scheme). Try the gene search.
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q9YH18KH domain-containing RNA-binding protein QKI OS=Gallus gallus OX=9031 GN=QKI PE=2 SV=2
Q5W9D7KH domain-containing RNA-binding protein QKI OS=Bos taurus OX=9913 GN=QKI PE=2 SV=1
Q9GMY1KH domain-containing RNA-binding protein QKI OS=Canis lupus familiaris OX=9615 GN=QKI PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0001193 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF16544
all species →		STAR_dimerHomodimerisation region of STAR domain proteinDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR036612
all species →		Homologous_superfamilyK Homology domain, type 1 superfamilyInterproscan
IPR045071
all species →		FamilyKH domain-containing BBP-likeInterproscan
IPR004087
all species →		DomainK Homology domainInterproscan
IPR032377
all species →		DomainSTAR protein, homodimerisation regionInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11208
all species →		RNA-BINDING PROTEIN RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003723
all species →		Molecular FunctionRNA bindingInterproscan
GO:0003729
all species →		Molecular FunctionmRNA bindingInterproscan
GO:0005634
all species →		Cellular ComponentnucleusInterproscan
GO:0048024
all species →		Biological Processregulation of mRNA splicing, via spliceosomeInterproscan
GO:0003676
all species →		Molecular Functionnucleic acid bindingInterproscan

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
K14945QKI; protein quaking-Spliceosomeko03041deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g35040.t1 across 48 RNA-seq samples of Montipora capitata. 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.

48Samples
48TPM > 0
3Conditions
619.0Max TPM
396.5Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
whole organisms · ambient pH treatment 21 21 373.75 590.97
whole organisms · low pH treatment 15 15 429.09 619.01
whole organisms · extra low pH treatment pH treatment 12 12 395.43 614.75

Per sample · hover a bar for the full sample record

Show the sample table (48 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR11452260 whole organisms · ambient pH treatment whole organisms cleavage ambient pH treatment SRP254626 590.97
SRR11452250 whole organisms · ambient pH treatment whole organisms prawn chip ambient pH treatment SRP254626 529.19
SRR11452242 whole organisms · ambient pH treatment whole organisms gastrula ambient pH treatment SRP254626 498.78
SRR11452263 whole organisms · ambient pH treatment whole organisms egg ambient pH treatment SRP254626 490.42
SRR11452259 whole organisms · ambient pH treatment whole organisms cleavage ambient pH treatment SRP254626 489.00
SRR11452243 whole organisms · ambient pH treatment whole organisms gastrula ambient pH treatment SRP254626 467.84
SRR11452254 whole organisms · ambient pH treatment whole organisms cleavage ambient pH treatment SRP254626 450.46
SRR11452237 whole organisms · ambient pH treatment whole organisms gastrula ambient pH treatment SRP254626 449.21
SRR11452246 whole organisms · ambient pH treatment whole organisms prawn chip ambient pH treatment SRP254626 448.85
SRR11452262 whole organisms · ambient pH treatment whole organisms egg ambient pH treatment SRP254626 442.54
SRR11452252 whole organisms · ambient pH treatment whole organisms prawn chip ambient pH treatment SRP254626 433.43
SRR11452251 whole organisms · ambient pH treatment whole organisms egg ambient pH treatment SRP254626 339.13
SRR11452217 whole organisms · ambient pH treatment whole organisms fertilized embryo ambient pH treatment SRP254626 328.64
SRR11452233 whole organisms · ambient pH treatment whole organisms morula ambient pH treatment SRP254626 321.72
SRR11452240 whole organisms · ambient pH treatment whole organisms fertilized embryo ambient pH treatment SRP254626 319.69
SRR11452234 whole organisms · ambient pH treatment whole organisms morula ambient pH treatment SRP254626 312.30
SRR11452232 whole organisms · ambient pH treatment whole organisms blastula ambient pH treatment SRP254626 296.75
SRR11452231 whole organisms · ambient pH treatment whole organisms blastula ambient pH treatment SRP254626 169.38
SRR11452230 whole organisms · ambient pH treatment whole organisms planulae ambient pH treatment SRP254626 166.95
SRR11452222 whole organisms · ambient pH treatment whole organisms planulae ambient pH treatment SRP254626 156.24
SRR11452228 whole organisms · ambient pH treatment whole organisms planulae ambient pH treatment SRP254626 147.31
SRR11452241 whole organisms · low pH treatment whole organisms gastrula low pH treatment SRP254626 619.01
SRR11452238 whole organisms · low pH treatment whole organisms gastrula low pH treatment SRP254626 595.86
SRR11452253 whole organisms · low pH treatment whole organisms cleavage low pH treatment SRP254626 582.64
SRR11452255 whole organisms · low pH treatment whole organisms cleavage low pH treatment SRP254626 563.16
SRR11452249 whole organisms · low pH treatment whole organisms prawn chip low pH treatment SRP254626 531.51
SRR11452247 whole organisms · low pH treatment whole organisms prawn chip low pH treatment SRP254626 525.61
SRR11452258 whole organisms · low pH treatment whole organisms cleavage low pH treatment SRP254626 503.00
SRR11452236 whole organisms · low pH treatment whole organisms gastrula low pH treatment SRP254626 471.01
SRR11452245 whole organisms · low pH treatment whole organisms prawn chip low pH treatment SRP254626 435.88
SRR11452229 whole organisms · low pH treatment whole organisms fertilized embryo low pH treatment SRP254626 423.02
SRR11452218 whole organisms · low pH treatment whole organisms fertilized embryo low pH treatment SRP254626 401.10
SRR11452216 whole organisms · low pH treatment whole organisms fertilized embryo low pH treatment SRP254626 399.28
SRR11452224 whole organisms · low pH treatment whole organisms planulae low pH treatment SRP254626 131.99
SRR11452223 whole organisms · low pH treatment whole organisms planulae low pH treatment SRP254626 130.41
SRR11452221 whole organisms · low pH treatment whole organisms planulae low pH treatment SRP254626 122.90
SRR11452257 whole organisms · extra low pH treatment pH treatment whole organisms cleavage extra low pH treatment pH treatment SRP254626 614.75
SRR11452239 whole organisms · extra low pH treatment pH treatment whole organisms gastrula extra low pH treatment pH treatment SRP254626 608.05
SRR11452244 whole organisms · extra low pH treatment pH treatment whole organisms prawn chip extra low pH treatment pH treatment SRP254626 525.17
SRR11452248 whole organisms · extra low pH treatment pH treatment whole organisms prawn chip extra low pH treatment pH treatment SRP254626 524.54
SRR11452235 whole organisms · extra low pH treatment pH treatment whole organisms gastrula extra low pH treatment pH treatment SRP254626 508.74
SRR11452256 whole organisms · extra low pH treatment pH treatment whole organisms cleavage extra low pH treatment pH treatment SRP254626 456.00
SRR11452219 whole organisms · extra low pH treatment pH treatment whole organisms fertilized embryo extra low pH treatment pH treatment SRP254626 441.28
SRR11452261 whole organisms · extra low pH treatment pH treatment whole organisms fertilized embryo extra low pH treatment pH treatment SRP254626 337.50
SRR11452220 whole organisms · extra low pH treatment pH treatment whole organisms fertilized embryo extra low pH treatment pH treatment SRP254626 275.53
SRR11452227 whole organisms · extra low pH treatment pH treatment whole organisms planulae extra low pH treatment pH treatment SRP254626 165.54
SRR11452225 whole organisms · extra low pH treatment pH treatment whole organisms planulae extra low pH treatment pH treatment SRP254626 157.80
SRR11452226 whole organisms · extra low pH treatment pH treatment whole organisms planulae extra low pH treatment pH treatment SRP254626 130.28

Source: CnidoSite RNA-seq expression matrices (MCAPI_TPM, StringTie quantification over 48 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 Montipora capitata 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 correlated22g11770.t10.944601886237935
Negatively correlated52g27996.t1-0.92339420279322

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 Montipora capitata, 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.not in the sequence tableopen →
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.not in the sequence tableopen →
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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