Detailed information of evm.model.contig_14177.2 in Platygyra sinensis

Genomic Location: contig_14177:5402...11598
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)OG0004962 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00591
all species →
Glycos_transf_3Glycosyl transferase family, a/b domainFamilyInterproscan
PF07831
all species →
PYNP_CPyrimidine nucleoside phosphorylase C-terminal domainDomainInterproscan
PF02885
all species →
Glycos_trans_3NGlycosyl transferase family, helical bundle domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000053
all species →
FamilyThymidine/pyrimidine-nucleoside phosphorylaseInterproscan
IPR035902
all species →
Homologous_superfamilyNucleoside phosphorylase/phosphoribosyltransferase catalytic domain superfamilyInterproscan
IPR017872
all species →
Conserved_sitePyrimidine-nucleoside phosphorylase, conserved siteInterproscan
IPR000312
all species →
DomainGlycosyl transferase, family 3Interproscan
IPR013102
all species →
DomainPyrimidine nucleoside phosphorylase, C-terminalInterproscan
IPR036566
all species →
Homologous_superfamilyPyrimidine nucleoside phosphorylase-like, C-terminal domain superfamilyInterproscan
IPR036320
all species →
Homologous_superfamilyGlycosyl transferase family 3, N-terminal domain superfamilyInterproscan
IPR017459
all species →
DomainGlycosyl transferase family 3, N-terminal domainInterproscan
IPR018090
all species →
FamilyPyrimidine-nucleoside phosphorylase, bacterial/eukaryoticInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10515
all species →
THYMIDINE PHOSPHORYLASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0004645
all species →
Molecular Function1,4-alpha-oligoglucan phosphorylase activityInterproscan
GO:0006206
all species →
Biological Processpyrimidine nucleobase metabolic processInterproscan
GO:0016757
all species →
Molecular Functionglycosyltransferase activityInterproscan
GO:0006213
all species →
Biological Processpyrimidine nucleoside metabolic processInterproscan
GO:0016763
all species →
Molecular Functionpentosyltransferase activityInterproscan
GO:0005829
all species →
Cellular ComponentcytosolInterproscan
GO:0016154
all species →
Molecular Functionpyrimidine-nucleoside phosphorylase activityInterproscan

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
K00758deoA, TYMP; thymidine phosphorylaseEC:2.4.2.4
Bladder cancerko05219deepkoala

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 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.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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