Gene detail

Detailed information of HOLI00002.G20008 in Hydra oligactis

Genomic Location: HOLI00002:3239863...3240726
NR annotation: MBA4240022.1, RNA polymerase subunit sigma [Sphingobacteriaceae bacterium]
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 accession	Description
P33656	RNA polymerase sigma factor SigA OS=Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / IAM 19013 / LMG 5710 / NBRC 13948 / NRRL B-527 / VKM B-1787 / 2291 / W) OX=272562 GN=sigA PE=3 SV=1
O66381	RNA polymerase sigma factor SigA OS=Halalkalibacterium halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) OX=272558 GN=sigA PE=3 SV=2
P52329	RNA polymerase sigma factor SigA OS=Enterococcus faecalis (strain ATCC 700802 / V583) OX=226185 GN=sigA PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0013438 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04542 all species →	Sigma70_r2	Sigma-70 region 2	Domain	Interproscan
PF00140 all species →	Sigma70_r1_2	Sigma-70 factor, region 1.2	Family	Interproscan
PF04545 all species →	Sigma70_r4	Sigma-70, region 4	Domain	Interproscan
PF04539 all species →	Sigma70_r3	Sigma-70 region 3	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR007627 all species →	Domain	RNA polymerase sigma-70 region 2	Interproscan
IPR050239 all species →	Family	Sigma-70 factor family, RNA polymerase initiation factors	Interproscan
IPR013324 all species →	Homologous_superfamily	RNA polymerase sigma factor, region 3/4-like	Interproscan
IPR013325 all species →	Homologous_superfamily	RNA polymerase sigma factor, region 2	Interproscan
IPR009042 all species →	Domain	RNA polymerase sigma-70 region 1.2	Interproscan
IPR014284 all species →	Domain	RNA polymerase sigma-70 like domain	Interproscan
IPR007630 all species →	Domain	RNA polymerase sigma-70 region 4	Interproscan
IPR007624 all species →	Domain	RNA polymerase sigma-70 region 3	Interproscan
IPR000943 all species →	Domain	RNA polymerase sigma-70	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30603 all species →	RNA POLYMERASE SIGMA FACTOR RPO	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006352 all species →	Biological Process	DNA-templated transcription initiation	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0016987 all species →	Molecular Function	sigma factor activity	Interproscan

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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03086	rpoD; RNA polymerase primary sigma factor	-	Transcription machinery	ko03021	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.