Listeria innocua strain CFSAN044836 plasmid pCFSAN044836, complete sequence.
Bacteria; Bacillota; Bacilli; Bacillales; Listeriaceae; Listeria.
Closed genomes of twenty-eight foodborne pathogens from the CFSAN verification set by a combination of long and short-reads
Submitted (01-NOV-2019) ORS/DM/MMSB, Food and Drug Administration-College Park, 5001 Campus Drive, College Park, MD 20740-3835, USA
Submitted (10-MAY-2019) Center for Food Safety and Applied Nutrition, US Food and Drug Administration, 5100 Paint Branch Pkwy, College Park, MD, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP045744.1.\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 :: SPAdes, CANU v. 3.12.0, 1.7\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 59, 35x\nSequencing Technology :: Oxford Nanopore GridION, Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/09/2022 22:42:03\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) :: 2,969\nCDSs (total) :: 2,881\nGenes (coding) :: 2,850\nCDSs (with protein) :: 2,850\nGenes (RNA) :: 88\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 66\nncRNAs :: 4\nPseudo Genes (total) :: 31\nCDSs (without protein) :: 31\nPseudo Genes (ambiguous residues) :: 0 of 31\nPseudo Genes (frameshifted) :: 13 of 31\nPseudo Genes (incomplete) :: 16 of 31\nPseudo Genes (internal stop) :: 4 of 31\nPseudo Genes (multiple problems) :: 2 of 31\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_011011047.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003726387.1
COORDINATES: similar to AA sequence:RefSeq:WP_013315189.1
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF033516.0
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005470367.1
ATP-dependent Clp protease ATP-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_003728509.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002308079.1
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_003728510.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728511.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728512.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728513.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015055880.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728517.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003728518.1
COORDINATES: similar to AA sequence:RefSeq:WP_003769261.1
COORDINATES: similar to AA sequence:RefSeq:WP_003769263.1
COORDINATES: similar to AA sequence:RefSeq:WP_003731676.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728462.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728463.1
COORDINATES: similar to AA sequence:RefSeq:WP_003759355.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003728465.1
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003728466.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728467.1
Cd(II)-sensing metalloregulatory transcriptional repressor CadC
COORDINATES: similar to AA sequence:RefSeq:WP_003728468.1
COORDINATES: similar to AA sequence:RefSeq:WP_016356540.1
COORDINATES: similar to AA sequence:RefSeq:WP_019169201.1
COORDINATES: similar to AA sequence:RefSeq:WP_002510755.1
COORDINATES: similar to AA sequence:RefSeq:WP_003759368.1
COORDINATES: similar to AA sequence:RefSeq:WP_012952176.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728474.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611694.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728476.1
COORDINATES: nucleotide motif:Rfam:14.4:RF02683
NiCo riboswitches sense nickel or cobalt ions; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:NF018488.2
COORDINATES: protein motif:HMM:NF039412.1
COORDINATES: similar to AA sequence:RefSeq:WP_016897317.1
glycine betaine ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_003728481.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017370594.1
COORDINATES: similar to AA sequence:RefSeq:WP_064305258.1
COORDINATES: similar to AA sequence:RefSeq:WP_003331415.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728484.1
ArdC-like ssDNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011011011.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728486.1
COORDINATES: similar to AA sequence:RefSeq:WP_012952172.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728489.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728490.1
COORDINATES: similar to AA sequence:RefSeq:WP_012952171.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728492.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728495.1
COORDINATES: protein motif:HMM:NF013073.2
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013315180.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728499.1
COORDINATES: similar to AA sequence:RefSeq:WP_003728500.1
primase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003728501.1
ParA superfamily DNA segregation protein PrgP
COORDINATES: similar to AA sequence:RefSeq:WP_003728502.1