Detailed information of evm.model.contig_58834.4 in Platygyra sinensis

Genomic Location: contig_58834:39020...47899
NR annotation: no NCBI-NR hit recorded
Species Platygyra sinensis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0007381 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF12947
all species →
EGF_3EGF domainDomainInterproscan
PF00089
all species →
TrypsinTrypsinDomainInterproscan
PF00084
all species →
SushiSushi repeat (SCR repeat)DomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000152
all species →
PTMEGF-type aspartate/asparagine hydroxylation siteInterproscan
IPR024731
all species →
DomainEGF domainInterproscan
IPR001254
all species →
DomainSerine proteases, trypsin domainInterproscan
IPR009003
all species →
Homologous_superfamilyPeptidase S1, PA clanInterproscan
IPR001881
all species →
DomainEGF-like calcium-binding domainInterproscan
IPR000742
all species →
DomainEGF-like domainInterproscan
IPR000436
all species →
DomainSushi/SCR/CCP domainInterproscan
IPR043504
all species →
Homologous_superfamilyPeptidase S1, PA clan, chymotrypsin-like foldInterproscan
IPR035976
all species →
Homologous_superfamilySushi/SCR/CCP superfamilyInterproscan
IPR001314
all species →
FamilyPeptidase S1A, chymotrypsin familyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR24258
all species →
SERINE PROTEASE-RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0004252
all species →
Molecular Functionserine-type endopeptidase activityInterproscan
GO:0006508
all species →
Biological ProcessproteolysisInterproscan
GO:0005509
all species →
Molecular Functioncalcium ion 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 evm.model.contig_58834.4.

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

Co-expression network

Genes whose expression across the transcriptome samples of Platygyra sinensis 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.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Platygyra sinensis, and in which cell types it is a marker. Expression itself is 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.no expression matrix
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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