GenePage for the yghO' pseudogene of Escherichia coli K-12

Primary Gene Name: yghO'
EcoGene Accession Number: EG12999
K-12 Gene Accession Number: ECK2976
MG1655 Gene Identifier: b2981
Gene Name Mnemonic: Systematic nomenclature
Alternate Gene Symbols: None
Description: Pseudogene, N-terminus-truncated; IS-interrupted; N-acetyltransferase superfamily
  # bp Upstream # bp Downstream
MW: 41804.26 ---------366 aa Pre-Run BlastP UniProt
Pre-Run BlastP NR+Env
Left End: 3129043
Left Intergenic Region

Name: glcC_yghO

Length: 6 bp gap

Orientation: Convergent

Left_end: 3129037

Right_end: 3129042

Centisome: 67.41

Genomic Address
Counterclockwise
Minute or Centisome (%) = 67.41
Right End: 3130143
Right Intergenic Region

Name: yghO_insH15

Length: 70 bp gap

Orientation: Divergent

Left_end: 3130144

Right_end: 3130213

Centisome: 67.44

IS5LO has inserted into the N-terminus of yghO at codon 8, deleting the first 8 codons of yghO as well as any genes that were between yghO and yghQ. For example, E. coli CFT073 has eight genes (c3712-9) in the yghO-yghQ interval. The IS5LO-interrupted yghO alelle appears to be K-12 specific, indicating it could be a laboratory-acquired mutation. The missing eight N-terminal amino acids of an intact 374 aa YghO are MIKIEKVI, as can be found on any of the many intact alelles of yghO in other genomes, e.g. yghO of E. coli CFT073 (c3711). However, YghO of CFT073 is annotated as a 402 aa protein; yghO(c3711) has an annotated start codon 28 codons upstream of the probable start site; other alternate starts upstream of the conserved site are annotated variously across E. coli genomes. The MI start, but not the upstream alternate start codons, is conserved in all three YghO orthologs, all of which are annotated using the conserved MI start: Serratia marcescens SMWW4_v1c32720, Shimwellia blattae EBL_c39850, and Erwinia billingiae EbC_37190. Curiously, of 45 non-K-12 E. coli genomes with YghO alleles, only one (strain LF82) annotates the conserved yghO start codon (LF82_3204). In K-12 there are three upstream in-frame ATG codons encoded in IS5LO that possibly could be used to express a hybrid 'YghO.

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BamHI EcoRI HindIII