LOCUS       NZ_CP069494             1549 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1264 plasmid unnamed6, complete
            sequence.
ACCESSION   NZ_CP069494
VERSION     NZ_CP069494.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357406
            Assembly: GCF_016889265.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1549)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1549)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.14.1
            Genome Coverage                   :: 990.89x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 04:51:45
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,921
            CDSs (total)                      :: 4,808
            Genes (coding)                    :: 4,621
            CDSs (with protein)               :: 4,621
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 187
            CDSs (without protein)            :: 187
            Pseudo Genes (ambiguous residues) :: 0 of 187
            Pseudo Genes (frameshifted)       :: 73 of 187
            Pseudo Genes (incomplete)         :: 130 of 187
            Pseudo Genes (internal stop)      :: 34 of 187
            Pseudo Genes (multiple problems)  :: 45 of 187
            Pseudo Genes (short protein)      :: 3 of 187
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069494.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..1549
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1264"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1264"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(243..719)
                     /locus_tag="I6J94_RS24360"
                     /old_locus_tag="I6J94_24365"
     CDS             complement(243..719)
                     /locus_tag="I6J94_RS24360"
                     /old_locus_tag="I6J94_24365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     gene            1222..1347
                     /locus_tag="I6J94_RS24365"
                     /old_locus_tag="I6J94_24370"
     CDS             1222..1347
                     /locus_tag="I6J94_RS24365"
                     /old_locus_tag="I6J94_24370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001431667.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001431667.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     Typing          799..907
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(1103..1201)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          1301..1549
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.4"
                     /coverage="95.0"
                     /evalue="4.01e-96"
ORIGIN
        1 agccatgcgg ttggtaggtg gtcgtagacc gtcggtgttg cagcgatggg ggtctggggt
       61 tctccccaga cggtttccgg tagcgctcaa ggcgctgccg gaaccgtggc ggctcggttt
      121 tttctggaga acggggagca aaaacacgca aaggattttg aggcggcaaa agagcaatgc
      181 aggatagaca atcatggtca gaacgttaac acgtagcccc tgattgtccg cctgccgcta
      241 gctcaatttg aaaacatggc catgattcgg cgctgaatat caccgtcttt gttgaccagt
      301 gttttagtga caaacgctgc atggtttttc gtagtgttgt atcccttcca gacttcatgt
      361 ggatcgaggg catacgcaca aaccttacca gcaacgggga ttctaactaa tgcatttttt
      421 gattctaagt aattgagcca ccgaataatt gtgcttctgc taactccaag tttttcagct
      481 aggaattgct gatccgcaac gacagcgcca cacgtaggat cgatatgctc cgctaaaaat
      541 gagtacagct tcagtgctga tatgccttgg ctatccttca gcagctctcg aacacgttcc
      601 caaccttttg gggatacctg tgtaaacctt gaatttttct ttgcttcttc gagatcctcg
      661 gtgtttttct ttgcctcatc tgaaagttgt ttcagtcgtt tttctgaatc aataaacatg
      721 attttttccc tctgaaaatc ccatgcacta acgttggttt aaatctaagc catcatgaca
      781 catctgtgca acaccttgtt gcgtgttgtc gcatccagga tgcgacaacg ttgtgtcatc
      841 ctggatgcga caggtaaata aaaaacacac taaaaaaaca accacttaca aatcggcgta
      901 aaagatctat tctaggcaag ggtgttgcgt gcaacgcaac gccctttggg ggtgtcgggg
      961 cgaagccctg acccagtcac gtagcgatag cggagtgtat actggcttac tcctatgcaa
     1021 gcctcgccag ccgtgatttt tgccagattt cgtggttttc acgttcaaca gctccatcgt
     1081 gtttttgccg tccgttcacc gttaaaacgc ctcagaaatc gggacaggat gtgtaatcgt
     1141 ataaccgcgc atgcacgccg atacgattac cacttggtca gggcttcacc ccgacacccc
     1201 gcatcagtgc gtaagtgctc aatgtggctt ccggttctct tccgcttcct cgtcgattcg
     1261 ctcgctacgc tcggtcatcg acttgcggcg agcgggatca cctctcgcat gttgtcggtg
     1321 atcccggtgt tgttcttttg gggatgagtc gccagatagc ccctcaaacg cgctcaaaag
     1381 ctctcagacg cacgaaacgg gttttagatg cccgccaggg catggaaggc gcgaaaaacg
     1441 cttacagagg ctctcaggag gtcaagcgcg ccgatacccc taaccagggg ctttcaggtc
     1501 gccaggaacc gcgccagccc cctgcaaagc ccatttgcac ggaacaggc
//
