Escherichia fergusonii strain FDAARGOS_1499 plasmid unnamed, complete sequence.
Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia.
FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
Submitted (15-SEP-2021) Center for Devices and Radiological Health, US Food and Drug Administration, 10903 New Hampshire Avenue, White Oak, MD 20903, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP083639.1.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: SMRT v. 9.0.0, HGAP v. 4.0\nGenome Coverage :: 1460.71x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/16/2022 04:44:57\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,456\nCDSs (total) :: 4,341\nGenes (coding) :: 4,269\nCDSs (with protein) :: 4,269\nGenes (RNA) :: 115\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 86\nncRNAs :: 7\nPseudo Genes (total) :: 72\nCDSs (without protein) :: 72\nPseudo Genes (ambiguous residues) :: 0 of 72\nPseudo Genes (frameshifted) :: 26 of 72\nPseudo Genes (incomplete) :: 47 of 72\nPseudo Genes (internal stop) :: 16 of 72\nPseudo Genes (multiple problems) :: 13 of 72\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_004118283.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:YP_005229775.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229774.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:YP_005229773.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229772.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:YP_005226014.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
reverse transcriptase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_086558268.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS1-like element IS1X3 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_012561120.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611102.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006796897.1
IS5-like element IS903B family transposase
COORDINATES: similar to AA sequence:RefSeq:NP_460027.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611476.1
COORDINATES: similar to AA sequence:RefSeq:WP_000103622.1
COORDINATES: similar to AA sequence:RefSeq:WP_000284109.1
COORDINATES: similar to AA sequence:RefSeq:WP_000617209.1
COORDINATES: similar to AA sequence:RefSeq:WP_001021938.1
COORDINATES: similar to AA sequence:RefSeq:WP_000645939.1
COORDINATES: similar to AA sequence:RefSeq:WP_000687848.1
COORDINATES: similar to AA sequence:RefSeq:WP_010129446.1
COORDINATES: similar to AA sequence:RefSeq:WP_001095580.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
BREX-1 system adenine-specific DNA-methyltransferase PglX
COORDINATES: similar to AA sequence:RefSeq:WP_001167231.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000205526.1
GO:0005575 - cellular_component [Evidence IEA]
GO:0003674 - molecular_function [Evidence IEA]
GO:0008150 - biological_process [Evidence IEA]
protease Lon-related BREX system protein BrxL
COORDINATES: similar to AA sequence:RefSeq:WP_076611389.1
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000907654.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS110-like element ISEc21 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001138082.1
COORDINATES: similar to AA sequence:RefSeq:WP_000904896.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558163.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS3-like element IS1133 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_032495017.1
COORDINATES: similar to AA sequence:RefSeq:YP_005221001.1
COORDINATES: similar to AA sequence:RefSeq:WP_032489893.1
broad-spectrum class A beta-lactamase TEM-1
COORDINATES: similar to AA sequence:RefSeq:WP_001339197.1
IS4-like element ISVsa5 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_000275181.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0043565 - sequence-specific DNA binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000428546.1
tetracyline resistance-associated transcriptional repressor TetC
COORDINATES: similar to AA sequence:RefSeq:WP_001089064.1
GO:0016021 - integral component of membrane [Evidence IEA]
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
tetracycline efflux MFS transporter Tet(B)
COORDINATES: similar to AA sequence:RefSeq:WP_000088605.1
tetracycline resistance transcriptional repressor TetR(B)
COORDINATES: similar to AA sequence:RefSeq:WP_001284954.1
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_000460649.1
COORDINATES: similar to AA sequence:RefSeq:WP_000562370.1
COORDINATES: similar to AA sequence:RefSeq:WP_000599530.1
GO:0015501 - glutamate:sodium symporter activity [Evidence IEA]
GO:0015813 - L-glutamate transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005227464.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890156.1
aminoglycoside O-phosphotransferase APH(3'')-Ib
COORDINATES: similar to AA sequence:RefSeq:WP_000480972.1
aminoglycoside O-phosphotransferase APH(6)-Id
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:YP_005229630.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_004213073.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_000493378.1
COORDINATES: similar to AA sequence:RefSeq:WP_016243889.1
COORDINATES: similar to AA sequence:RefSeq:WP_000015958.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229619.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229618.1