LOCUS       NZ_CP070100             3044 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1370 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP070100
VERSION     NZ_CP070100.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357512
            Assembly: GCF_016904335.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3044)
  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  JOURNAL   Unpublished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 3044)
  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
            Genome Coverage                   :: 1046.79x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:28:47
            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)                     :: 5,174
            CDSs (total)                      :: 5,056
            Genes (coding)                    :: 4,837
            CDSs (with protein)               :: 4,837
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 219
            CDSs (without protein)            :: 219
            Pseudo Genes (ambiguous residues) :: 0 of 219
            Pseudo Genes (frameshifted)       :: 78 of 219
            Pseudo Genes (incomplete)         :: 148 of 219
            Pseudo Genes (internal stop)      :: 41 of 219
            Pseudo Genes (multiple problems)  :: 45 of 219
            Pseudo Genes (short protein)      :: 4 of 219
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070100.1.
            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..3044
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1370"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1370"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            402..551
                     /locus_tag="I6L00_RS25610"
                     /old_locus_tag="I6L00_25555"
     CDS             402..551
                     /locus_tag="I6L00_RS25610"
                     /old_locus_tag="I6L00_25555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_199380969.1"
                     /translation="MPSEHDEQRDVADTQLPGEYDLFDLMAKVTEENLHAPVDSGPPVG
                     WEAL"
                     /name="hypothetical protein"
     gene            complement(1353..1595)
                     /locus_tag="I6L00_RS25615"
                     /old_locus_tag="I6L00_25560"
     CDS             complement(1353..1595)
                     /locus_tag="I6L00_RS25615"
                     /old_locus_tag="I6L00_25560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001490769.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_031609430.1"
                     /translation="MAKQALEKKGISLSDALRAFLDKLAATEKVMTKEETWLKEQIEET
                     FSRVEKGEIRYYSEDEADERMNSFISKIEHQHETA"
                     /name="hypothetical protein"
     gene            1863..2258
                     /locus_tag="I6L00_RS25620"
                     /old_locus_tag="I6L00_25565"
     CDS             1863..2258
                     /locus_tag="I6L00_RS25620"
                     /old_locus_tag="I6L00_25565"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000896281.1"
                     /translation="MAFVSQVDKSRAASSRIGDSSIVVTQSYKASTKAQELSIRLKSLV
                     LSKGGMKIGDYVDVLYDKDSDRWMLRKMDGGLKITGKDDAPTGLIRYTLKDTHARFTED
                     KEHLPIRKSSIEDSLEIEDGQIVFKLD"
                     /name="hypothetical protein"
     gene            2270..2533
                     /locus_tag="I6L00_RS25625"
                     /old_locus_tag="I6L00_25570"
     CDS             2270..2533
                     /locus_tag="I6L00_RS25625"
                     /old_locus_tag="I6L00_25570"
                     /inference="COORDINATES: protein motif:HMM:NF016876.2"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_023237785.1"
                     /translation="MISKVLWADKALSDRETIFESNDKVSGLSYAKSEDAKIKRAVSTI
                     KRNNKVGRNDLDERGYVYVLPKRYKILYRLTEEHIFIERVFY"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          196..365
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="88.304"
                     /coverage="98.0"
                     /evalue="9.61e-51"
     Typing          complement(2852..3044)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.392"
                     /coverage="80.0"
                     /evalue="1.13e-84"
ORIGIN
        1 gggtttcgcc accactgatt tgagtgtcag attctgtgat gcttgtcagg ggggcggagc
       61 ctatggaaaa acggctccgc cgtggcctta tcgcttccct gttaagtttc ttcttggcat
      121 cttccaggaa atctccgccc cgcctgtaag ccgataccgc tcgccgcagc cgaacgaccg
      181 agcgcagcga gttagtgagc gaggaagcgg aatatcttct gtatcgcata ttctgcttac
      241 gctctgctgc agcatttttc tcctgccaca taaggcgctt tcctgattat cgcactcatg
      301 ccaacatact aagccagtat acactccgct agcgctacgt gactggtccg gcgctgcgcc
      361 cggaacccgc taacaacctc tcagctactg gatatcaccc catgccatct gaacatgatg
      421 aacaacggga tgttgctgat acgcagcttc ccggcgagta tgaccttttt gatttaatgg
      481 cgaaggttac tgaagagaac ctgcacgccc cggtggattc cgggccacct gtcggctggg
      541 aagcgttata gctttttcgt tgggaagcgt acgtgtaata cggttgtatt acatcttatt
      601 tctttatttt catgtattta cagttgattg taataccttg cgtattaccg tgacaaatgg
      661 agtatcccat tttttttatg taattcatgc agttgcgatg aaaatcgcgg ctgcgttagg
      721 tgtatgacca tttaagggtt aaaaaatcat cattttgact gggccatctg cgcaggttaa
      781 gaggctgata tgacaaaaaa gcgtccttca ctactccgtt catgctcgca tgaacggagt
      841 agttttcctg actacaggta aactacaaaa agactacaaa agctgatgtt taatcatgcc
      901 tttcagaggg ctaactacag ataaactaca aatcaactac agaattacat cacttttaca
      961 tcattcttac gtcagatctg acctctgaac tattcgtaca tccgccccct cttcctgcac
     1021 gtgctgaaaa tggtttttcc ggctgtgccg gcaaaatgcc tcatggctac gcaataaatt
     1081 gcgtccccgt tcaccgtttt cgggtaagaa gaacatcgga aacaggactt accccggctg
     1141 aatggcgtga atttccgcgc tatgcacttg cgcgcatact catgcatgac gtgaaaacag
     1201 aactaacgtg tttttggctg attttctgat agtttgttgt ctgttttacc tgtttcctgt
     1261 cagaaacgcc ctgaggccgt tttggcggtg cgtacaatta gggggttatg gtaaataagg
     1321 gcataaaaaa agccgccata aggcggcttt ttttatgcgg tttcgtgttg atgttcgatt
     1381 ttagagatga aggagttcat gcgttcgtca gcttcatctt ctgagtaata gcggatctct
     1441 cctttttcta ctcttgagaa tgtctcttct atctgctctt tcagccatgt ctcttctttc
     1501 gtcataacct tctccgttgc tgctaactta tcgagaaacg ctcttaacgc atcgctaagt
     1561 gaaatgcctt ttttttcaag tgcttgcttt gccattttct ttgtttcaga ttcaattctg
     1621 aattgcaccc ttgtttccat agatatagat cccagcgtct attgtgagta cgtttgtgct
     1681 cacaatagac gctgggatcc ctacagtcaa tgcctccttt cttagattta tgattagaaa
     1741 aagtaacttt ttttcttcgg gttctgagag aggataaaga tcagataaaa acatggttct
     1801 gtgttgctaa gattttttgc cgatcgtatt atgaacatga aaataaacta tcaggaggtt
     1861 ttatggcatt tgttagtcag gttgataagt ctagggctgc ttcgagcagg attggtgatt
     1921 cgtctatagt ggtcactcaa tcatacaagg cttcaactaa ggctcaggag ctatccatta
     1981 gattaaaatc gttagtgtta tctaagggag gtatgaaaat tggtgattac gttgatgttc
     2041 tttatgacaa ggatagtgat cgctggatgt taaggaagat ggatggaggt ttaaaaatta
     2101 ctggtaagga tgatgcccct acggggttga ttagatatac cctgaaggat acacatgcga
     2161 gatttaccga ggataaagag cacctcccta ttcgtaaatc ctctattgag gattcactgg
     2221 agattgagga tgggcagatt gtatttaagc ttgactagcg ggaggtttga tgatctctaa
     2281 ggttctatgg gcagataagg cattatctga tcgagagact atctttgagt ctaacgataa
     2341 ggtttctggt ttgtcgtatg caaaatcaga agatgcaaaa attaaacgtg ctgtttctac
     2401 gataaaacga aacaacaaag taggcagaaa tgacctggat gagcgaggtt atgtctatgt
     2461 tctacctaaa agatacaaga ttttgtatcg gctgactgag gagcatattt ttattgagcg
     2521 cgttttctac tgatggtttg gcgacctttc ttgactacgc gtctctttag ctattaatct
     2581 tgggatgaag aaaaccaccg ctaccaacgg tggtttcttc gtagtccttt gagctaccaa
     2641 ctcattggac ttgtggtaac tggctttcgc ggagcgcagt caccaaaact tgttctttca
     2701 gtgtagccgt agttcactgc tcacttcaag atatccttgc ttaccttctt tctacgctcc
     2761 gcaaatcagt tattacaggc ttccaccatt gtcataattt gagtcaaaca agattggatt
     2821 caagagtcga gttgcttgtt tgtcgtgggg gtcggactga acggggggtt cgtgcataca
     2881 gtccagcttg gagcgaactg cctacccgga actgagtgtc aggcgtggaa tgagacaaac
     2941 gcggccataa cagcggaatg acaccggtaa accgaatggc aggaacagga gagcgcacga
     3001 gggagccatc agggggaaac gcctggtatc tttatagtcc tgtc
//
