Detailed information of evm.model.contig_82800.6 in Platygyra sinensis

Genomic Location: contig_82800:37022...54528
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)OG0001791 (this species only) · gene tree & orthology
Ubiquitin familyE3|E3 activity RING|RING · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00710
all species →
AsparaginaseAsparaginase, N-terminalDomainInterproscan
PF17763
all species →
Asparaginase_CGlutaminase/Asparaginase C-terminal domainDomainInterproscan
PF17170
all species →
DUF51286-bladed beta-propellerRepeatInterproscan
PF00643
all species →
zf-B_boxB-box zinc fingerDomainInterproscan
PF12796
all species →
Ank_2Ankyrin repeats (3 copies)RepeatInterproscan
PF00097
all species →
zf-C3HC4Zinc finger, C3HC4 type (RING finger)DomainInterproscan
PF00630
all species →
FilaminFilamin/ABP280 repeatDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR002110
all species →
RepeatAnkyrin repeatInterproscan
IPR027474
all species →
DomainL-asparaginase, N-terminalInterproscan
IPR036770
all species →
Homologous_superfamilyAnkyrin repeat-containing domain superfamilyInterproscan
IPR006034
all species →
FamilyAsparaginase/glutaminase-likeInterproscan
IPR001298
all species →
RepeatFilamin/ABP280 repeatInterproscan
IPR040919
all species →
DomainAsparaginase/glutaminase, C-terminalInterproscan
IPR011042
all species →
Homologous_superfamilySix-bladed beta-propeller, TolB-likeInterproscan
IPR014756
all species →
Homologous_superfamilyImmunoglobulin E-setInterproscan
IPR000315
all species →
DomainB-box-type zinc fingerInterproscan
IPR013783
all species →
Homologous_superfamilyImmunoglobulin-like foldInterproscan
IPR027473
all species →
Homologous_superfamilyL-asparaginase, C-terminalInterproscan
IPR017868
all species →
RepeatFilamin/ABP280 repeat-likeInterproscan
IPR001841
all species →
DomainZinc finger, RING-typeInterproscan
IPR018957
all species →
DomainZinc finger, C3HC4 RING-typeInterproscan
IPR036152
all species →
Homologous_superfamilyAsparaginase/glutaminase-like superfamilyInterproscan
IPR001258
all species →
RepeatNHL repeatInterproscan
IPR017907
all species →
Conserved_siteZinc finger, RING-type, conserved siteInterproscan
IPR037152
all species →
Homologous_superfamilyL-asparaginase, N-terminal domain superfamilyInterproscan
IPR027475
all species →
Active_siteAsparaginase/glutaminase, active site 2Interproscan
IPR013083
all species →
Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11707
all species →
L-ASPARAGINASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005515
all species →
Molecular Functionprotein bindingInterproscan
GO:0008270
all species →
Molecular Functionzinc ion bindingInterproscan
GO:0046872
all species →
Molecular Functionmetal ion bindingInterproscan
GO:0004067
all species →
Molecular Functionasparaginase 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
No KEGG orthology assignment for evm.model.contig_82800.6.

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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