Detailed information of Cxam_g5915.t1 in Cassiopea xamachana

Genomic Location: not available for this species
NR annotation: QDV05709.1, Cyclic di-GMP phosphodiesterase Gmr [Planctomycetes bacterium Poly30]
Species Cassiopea xamachana · all data for this species · gene families

 Sequence
Sequence data are not available for Cassiopea xamachana.
Nucleotide and protein sequences are provided for the species whose genome annotation is complete (see annotated genomes); for this species only the assembly is archived. The functional annotation below is likewise unavailable.
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
P55552Uncharacterized protein y4lL OS=Sinorhizobium fredii (strain NBRC 101917 / NGR234) OX=394 GN=NGR_a02630 PE=4 SV=1
Q9I310Bifunctional diguanylate cyclase/cyclic di-GMP phosphodiesterase MucR OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=mucR PE=1 SV=1
P77334Cyclic di-GMP phosphodiesterase PdeR OS=Escherichia coli (strain K12) OX=83333 GN=pdeR PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0010506 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00990
all species →		GGDEFDiguanylate cyclase, GGDEF domainDomainInterproscan
PF00563
all species →		EALEAL domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR001633
all species →		DomainEAL domainInterproscan
IPR000160
all species →		DomainGGDEF domainInterproscan
IPR052155
all species →		FamilyBacterial biofilm regulation signaling proteinInterproscan
IPR035919
all species →		Homologous_superfamilyEAL domain superfamilyInterproscan
IPR029787
all species →		Homologous_superfamilyNucleotide cyclaseInterproscan
IPR043128
all species →		Homologous_superfamilyReverse transcriptase/Diguanylate cyclase domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR44757
all species →		DIGUANYLATE CYCLASE DGCPInterproscan

 Gene Ontology
No Gene Ontology signature was recorded for Cxam_g5915.t1 in Cassiopea xamachana.
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 Cxam_g5915.t1.

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 Cassiopea xamachana 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 Cassiopea xamachana, 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.sequence table not available–
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.sequence table not available–
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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