Detailed information of HOLI00002.G18862 in Hydra oligactis

Genomic Location: HOLI00002:1851378...1852859
NR annotation: WP_113619033.1, non-ribosomal peptide synthetase [Chitinophaga flava]
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
P0C064Gramicidin S synthase 2 OS=Brevibacillus brevis OX=1393 GN=grsB PE=1 SV=2
P0C063Gramicidin S synthase 2 OS=Aneurinibacillus migulanus OX=47500 GN=grsB PE=1 SV=2
O30409Tyrocidine synthase 3 OS=Brevibacillus parabrevis OX=54914 GN=tycC PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0002095 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00501
all species →		AMP-bindingAMP-binding enzymeFamilyInterproscan
PF13193
all species →		AMP-binding_CAMP-binding enzyme C-terminal domainDomainInterproscan
PF00550
all species →		PP-bindingPhosphopantetheine attachment siteDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000873
all species →		DomainAMP-dependent synthetase/ligase domainInterproscan
IPR045851
all species →		Homologous_superfamilyAMP-binding enzyme, C-terminal domain superfamilyInterproscan
IPR020806
all species →		DomainPolyketide synthase, phosphopantetheine-binding domainInterproscan
IPR006162
all species →		PTMPhosphopantetheine attachment siteInterproscan
IPR036736
all species →		Homologous_superfamilyACP-like superfamilyInterproscan
IPR025110
all species →		DomainAMP-binding enzyme, C-terminal domainInterproscan
IPR009081
all species →		DomainPhosphopantetheine binding ACP domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR44845
all species →		CARRIER DOMAIN-CONTAINING PROTEINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0031177
all species →		Molecular Functionphosphopantetheine 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 HOLI00002.G18862.

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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