Detailed information of HOLI00001.G50553 in Hydra oligactis

Genomic Location: HOLI00001:1959786...1961188
NR annotation: WP_262154860.1, MULTISPECIES: PDR/VanB family oxidoreductase [unclassified Pseudomonas]
Species Hydra oligactis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
A4XXY8Heme-dependent oxidative N-demethylase beta subunit OS=Ectopseudomonas mendocina (strain ymp) OX=399739 GN=Pmen_3454 PE=1 SV=1
P76254Carnitine monooxygenase reductase subunit OS=Escherichia coli (strain K12) OX=83333 GN=yeaX PE=1 SV=1
Q9AHG2Putative toluene-4-sulfonate monooxygenase system reductase subunit TsaB2 OS=Comamonas testosteroni OX=285 GN=tsaB2 PE=5 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0024831 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00111
all species →		Fer22Fe-2S iron-sulfur cluster binding domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR001041
all species →		Domain2Fe-2S ferredoxin-type iron-sulfur binding domainInterproscan
IPR017938
all species →		Homologous_superfamilyRiboflavin synthase-like beta-barrelInterproscan
IPR048037
all species →		DomainDimethylamine monooxygenase subunit DmmA-like, C-terminal domainInterproscan
IPR039261
all species →		Homologous_superfamilyFerredoxin-NADP reductase (FNR), nucleotide-binding domainInterproscan
IPR050415
all species →		FamilyMulticomponent Reductase Electron TransferInterproscan
IPR006058
all species →		Binding_site2Fe-2S ferredoxin, iron-sulphur binding siteInterproscan
IPR036010
all species →		Homologous_superfamily2Fe-2S ferredoxin-like superfamilyInterproscan
IPR017927
all species →		DomainFAD-binding domain, ferredoxin reductase-typeInterproscan
IPR012675
all species →		Homologous_superfamilyBeta-grasp domain superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR47354
all species →		NADH OXIDOREDUCTASE HCRInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0051536
all species →		Molecular Functioniron-sulfur cluster bindingInterproscan
GO:0016491
all species →		Molecular Functionoxidoreductase activityInterproscan
GO:0051537
all species →		Molecular Function2 iron, 2 sulfur cluster 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 HOLI00001.G50553.

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 Hydra oligactis 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 Hydra oligactis, 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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