Detailed information of scaffold121.g76.t1 in Morbakka virulenta

Genomic Location: scaffold121:479299...507209
NR annotation: MCB0383983.1, efflux RND transporter permease subunit [Bdellovibrionales bacterium]
Species Morbakka virulenta · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q6MDF6Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B OS=Protochlamydia amoebophila (strain UWE25) OX=264201 GN=gatB PE=3 SV=1
Q6MDF5Glutamyl-tRNA(Gln) amidotransferase subunit A OS=Protochlamydia amoebophila (strain UWE25) OX=264201 GN=gatA PE=3 SV=1
D0JNB0Multidrug resistance protein MdtB OS=Yersinia pestis (strain D182038) OX=637385 GN=mdtB PE=3 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0010772 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF02934
all species →
GatB_NGatB/GatE catalytic domainDomainInterproscan
PF02637
all species →
GatB_YqeyGatB domainDomainInterproscan
PF13533
all species →
Biotin_lipoyl_2Biotin-lipoyl likeDomainInterproscan
PF00873
all species →
ACR_tranAcrB/AcrD/AcrF familyFamilyInterproscan
PF01425
all species →
AmidaseAmidaseFamilyInterproscan
PF02321
all species →
OEPOuter membrane efflux proteinFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR027463
all species →
Homologous_superfamilyMultidrug efflux transporter AcrB TolC docking domain, DN/DC subdomainsInterproscan
IPR018027
all species →
DomainAsn/Gln amidotransferaseInterproscan
IPR006075
all species →
DomainAspartyl/Glutamyl-tRNA(Gln) amidotransferase, subunit B/E, catalyticInterproscan
IPR042114
all species →
Homologous_superfamilyAspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C-terminal, domain 1Interproscan
IPR004413
all species →
FamilyAspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit BInterproscan
IPR001036
all species →
FamilyAcriflavin resistance proteinInterproscan
IPR004412
all species →
FamilyGlutamyl-tRNA(Gln) amidotransferase A subunitInterproscan
IPR039562
all species →
DomainMembrane fusion protein, biotin-lipoyl like domainInterproscan
IPR036928
all species →
Homologous_superfamilyAmidase signature (AS) superfamilyInterproscan
IPR014746
all species →
Homologous_superfamilyGlutamine synthetase/guanido kinase, catalytic domainInterproscan
IPR006143
all species →
FamilyRND efflux pump, membrane fusion proteinInterproscan
IPR003789
all species →
Homologous_superfamilyAspartyl/glutamyl-tRNA amidotransferase subunit B-likeInterproscan
IPR023631
all species →
DomainAmidase signature domainInterproscan
IPR003423
all species →
FamilyOuter membrane efflux proteinInterproscan
IPR020556
all species →
Conserved_siteAmidase, conserved siteInterproscan
IPR017958
all species →
Conserved_siteGlutamyl-tRNA(Gln) amidotransferase, subunit B, conserved siteInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR32063
all species →
-Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0016884
all species →
Molecular Functioncarbon-nitrogen ligase activity, with glutamine as amido-N-donorInterproscan
GO:0016874
all species →
Molecular Functionligase activityInterproscan
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0022857
all species →
Molecular Functiontransmembrane transporter activityInterproscan
GO:0055085
all species →
Biological Processtransmembrane transportInterproscan
GO:0006412
all species →
Biological ProcesstranslationInterproscan
GO:0030956
all species →
Cellular Componentglutamyl-tRNA(Gln) amidotransferase complexInterproscan
GO:0050567
all species →
Molecular Functionglutaminyl-tRNA synthase (glutamine-hydrolyzing) activityInterproscan
GO:0005886
all species →
Cellular Componentplasma membraneInterproscan
GO:0042910
all species →
Molecular Functionxenobiotic transmembrane transporter activityInterproscan
GO:0003824
all species →
Molecular Functioncatalytic activityInterproscan
GO:0015562
all species →
Molecular Functionefflux transmembrane transporter 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 scaffold121.g76.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 Morbakka virulenta 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 Morbakka virulenta, 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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