Detailed information of Cxam_g1501.t1 in Cassiopea xamachana

Genomic Location: not available for this species
NR annotation: WP_170325189.1, agmatinase [Ruegeria arenilitoris]
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
Q7P0S6Agmatinase OS=Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / CCUG 213 / NBRC 12614 / NCIMB 9131 / NCTC 9757 / MK) OX=243365 GN=speB PE=3 SV=1
A9M254Agmatinase OS=Neisseria meningitidis serogroup C (strain 053442) OX=374833 GN=speB PE=3 SV=1
P60653Agmatinase OS=Neisseria meningitidis serogroup A / serotype 4A (strain DSM 15465 / Z2491) OX=122587 GN=speB PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0002455 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00491
all species →		ArginaseArginase familyDomainInterproscan
PF07687
all species →		M20_dimerPeptidase dimerisation domainDomainInterproscan
PF01546
all species →		Peptidase_M20Peptidase family M20/M25/M40FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR005925
all species →		FamilyAgmatinase-relatedInterproscan
IPR006035
all species →		FamilyUreohydrolaseInterproscan
IPR020855
all species →		Binding_siteUreohydrolase, manganese-binding siteInterproscan
IPR017439
all species →		FamilyAmidohydrolaseInterproscan
IPR023696
all species →		Homologous_superfamilyUreohydrolase domain superfamilyInterproscan
IPR036264
all species →		Homologous_superfamilyBacterial exopeptidase dimerisation domainInterproscan
IPR011650
all species →		DomainPeptidase M20, dimerisation domainInterproscan
IPR002933
all species →		FamilyPeptidase M20Interproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11014
all species →		PEPTIDASE M20 FAMILY MEMBERInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0046872
all species →		Molecular Functionmetal ion bindingInterproscan
GO:0016813
all species →		Molecular Functionhydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidinesInterproscan
GO:0016787
all species →		Molecular Functionhydrolase 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 Cxam_g1501.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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