Detailed information of asel_s0070.g13.t1 in Acropora selago

Genomic Location: sc0000070_pilon:190186...194395
NR annotation: XP_015748921.1, PREDICTED: WD repeat-containing protein 31-like [Acropora digitifera]
Species Acropora selago · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q8NA23WD repeat-containing protein 31 OS=Homo sapiens OX=9606 GN=WDR31 PE=1 SV=1
Q9JHB4WD repeat-containing protein 31 OS=Mus musculus OX=10090 GN=Wdr31 PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0006438 (this species only) · gene tree & orthology
Ubiquitin familyUBD|Other|Beta-prp · all ubiquitin genes in this species
Ubiquitin familyE3|E3 adaptor Cullin RING|DWD · all ubiquitin genes in this species

 Pfam domain
No Pfam domain signature was recorded for asel_s0070.g13.t1 in Acropora selago.
 InterPro
InterPro termTypeDescriptionSource
IPR015943
all species →		Homologous_superfamilyWD40/YVTN repeat-like-containing domain superfamilyInterproscan
IPR040066
all species →		FamilyWD repeat-containing protein 31Interproscan
IPR036322
all species →		Homologous_superfamilyWD40-repeat-containing domain superfamilyInterproscan
IPR001680
all species →		RepeatWD40 repeatInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR19869
all species →		SPERMATID WD-REPEAT PROTEINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005515
all species →		Molecular Functionprotein 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
No KEGG orthology assignment for asel_s0070.g13.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of asel_s0070.g13.t1 across 24 RNA-seq samples of Acropora selago. 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.

24Samples
19TPM > 0
1Conditions
17.1Max TPM
9.5Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
coral larvae 24 19 9.46 17.10

Per sample · hover a bar for the full sample record

Show the sample table (24 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR14308024 coral larvae coral larvae not recorded not recorded SRP315987 17.10
SRR14308015 coral larvae coral larvae not recorded not recorded SRP315987 16.91
SRR14308020 coral larvae coral larvae not recorded not recorded SRP315987 15.47
SRR14308012 coral larvae coral larvae not recorded not recorded SRP315987 14.84
SRR14308007 coral larvae coral larvae not recorded not recorded SRP315987 14.58
SRR14308021 coral larvae coral larvae not recorded not recorded SRP315987 14.47
SRR14308027 coral larvae coral larvae not recorded not recorded SRP315987 14.32
SRR14308025 coral larvae coral larvae not recorded not recorded SRP315987 13.81
SRR14308010 coral larvae coral larvae not recorded not recorded SRP315987 12.48
SRR14308006 coral larvae coral larvae not recorded not recorded SRP315987 12.31
SRR14308026 coral larvae coral larvae not recorded not recorded SRP315987 11.73
SRR14308022 coral larvae coral larvae not recorded not recorded SRP315987 11.20
SRR14308014 coral larvae coral larvae not recorded not recorded SRP315987 10.63
SRR14308023 coral larvae coral larvae not recorded not recorded SRP315987 10.53
SRR14308016 coral larvae coral larvae not recorded not recorded SRP315987 9.87
SRR14308004 coral larvae coral larvae not recorded not recorded SRP315987 8.33
SRR14308019 coral larvae coral larvae not recorded not recorded SRP315987 7.39
SRR14308017 coral larvae coral larvae not recorded not recorded SRP315987 7.02
SRR14308013 coral larvae coral larvae not recorded not recorded SRP315987 4.16
SRR14308005 coral larvae coral larvae not recorded not recorded SRP315987 0.00
SRR14308008 coral larvae coral larvae not recorded not recorded SRP315987 0.00
SRR14308009 coral larvae coral larvae not recorded not recorded SRP315987 0.00
SRR14308011 coral larvae coral larvae not recorded not recorded SRP315987 0.00
SRR14308018 coral larvae coral larvae not recorded not recorded SRP315987 0.00

Source: CnidoSite RNA-seq expression matrices (ASELA_TPM, StringTie quantification over 24 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 Acropora selago 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 correlated18asel_s0741.g7.t10.838079373905708
Negatively correlated3asel_s0139.g29.t1-0.688567250714483

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 Acropora selago, 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.

DNA methylation (bisulphite samples)

SampleMethylation profile
Coral_Fragment_Parentopen
Larval_Pool_Offspringopen

The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.

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