LOCUS       NZ_CP069464             1935 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1249 plasmid unnamed5.
ACCESSION   NZ_CP069464
VERSION     NZ_CP069464.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357391
            Assembly: GCF_016889125.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1935)
  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  JOURNAL   Unpublished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 1935)
  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                   :: 864.31x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 04:58:46
            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)                     :: 5,157
            CDSs (total)                      :: 5,036
            Genes (coding)                    :: 4,746
            CDSs (with protein)               :: 4,746
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 290
            CDSs (without protein)            :: 290
            Pseudo Genes (ambiguous residues) :: 0 of 290
            Pseudo Genes (frameshifted)       :: 76 of 290
            Pseudo Genes (incomplete)         :: 208 of 290
            Pseudo Genes (internal stop)      :: 41 of 290
            Pseudo Genes (multiple problems)  :: 34 of 290
            Pseudo Genes (short protein)      :: 4 of 290
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069464.1.
            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/
FEATURES             Location/Qualifiers
     source          1..1935
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1249"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1249"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(579..866)
                     /locus_tag="I6J79_RS25280"
                     /old_locus_tag="I6J79_25280"
     CDS             complement(579..866)
                     /locus_tag="I6J79_RS25280"
                     /old_locus_tag="I6J79_25280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001220925.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049092722.1"
                     /translation="MRIKYESRWRLEELKLEICSSIDELINKYGIEYATGINLYMNCED
                     KEFNLVDVINEDGNKIMFVVSNDEKIQKPKKIAKKKTPAPVIELDKYRKK"
                     /name="hypothetical protein"
     gene            complement(873..1412)
                     /locus_tag="I6J79_RS25285"
                     /old_locus_tag="I6J79_25285"
     CDS             complement(873..1412)
                     /locus_tag="I6J79_RS25285"
                     /old_locus_tag="I6J79_25285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000893324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000893325.1"
                     /translation="MLEQQFEDFEQQKRRDHQVQDQSKNAKQKRDRLNPPDWSQVTKAG
                     WNMLDAISEKVPRAFRLYSFFAQNIDKSCGAVVCDQKFLADYFGVSLRTIQYWIGDLES
                     IGAIVKIPVGIYYAYALDPYQVWRGYNNTKKYAAFNAKTLTQKDGVIDRKLRLMLSRRE
                     EFESSLKYSNHDSEQG"
                     /name="replication/maintenance protein RepL"
     Typing          complement(1789..1870)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.59"
                     /coverage="100.0"
                     /evalue="2.9e-32"
     Typing          83..341
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.923"
                     /coverage="99.0"
                     /evalue="5.01e-120"
ORIGIN
        1 tcaatgtggc ttccggttct cttccgcttc ctcgtcgatt cgctcgctac gctcggtcat
       61 cgacttgcgg cgagcggtgt cacctctcgc atgttgtcgg tgctcccgtt gttgttcttt
      121 cagggatgag tcgtcagata gcccttcaaa cgcgctcaga agctctcaga cgcacgaaac
      181 gggttttaaa tgcccgtcag ggcatggaag gcgcgaaaaa cgcttacaga ggctctcagg
      241 aggtcaggcg cgccgatacc cctaaccagg ggctttcagg tcgccaggaa cagcgtcagc
      301 cccctgcaaa gcctatttgc acggcatagg cagctattcg gctggtaggt ggtcgtagac
      361 cgtcggtatt acagcgatgg gggtctgggg ttctccccag acggtttccg gttgcgctca
      421 aggcgctatc ggaaccgtgg cggctcggtc gttctggaga gcgtggaaca aaaacacgca
      481 agggattcga ggcggcaaaa gagcaatgca ggatagacaa tcaaggtcag aacgttaaca
      541 cgtagcccct gattgtccgc ctgccgctgg ctcaatggtc atttttttcg atatttatct
      601 agctcaatta caggtgctgg agtttttttc tttgctattt tttttggctt ttgtattttt
      661 tcatcgttgc taacgacaaa cattatttta tttccatctt cattgataac atcaacaaga
      721 ttaaattctt tatcttcaca attcatataa agatttattc ctgttgcata ttcaatacca
      781 tatttattaa ttaactcatc tattgaactg catatttcta attttagttc ttctaatctc
      841 caacgtgatt catatttaat tctcatagtg catcacccct gctctgagtc atgattagag
      901 tactttaagg aactttcaaa ctcttcacgc ctagaaagca taagccgcaa tttacgatct
      961 ataaccccat ctttttgagt taatgttttt gcgttaaatg ctgcatattt tttagtattg
     1021 ttatatccac gccatacctg ataaggatct aatgcatagg cataatatat gcctactggt
     1081 attttaacta ttgcgccaat actttctaaa tctccaatcc aatattggat cgttcttaaa
     1141 ctaacaccga aataatcagc taagaatttt tgatcacata caacagcccc acatgattta
     1201 tctatattct gggcaaaaaa agaatataac cgaaatgctc taggaacttt ttctgatata
     1261 gcgtccaaca tattccaacc agccttagta acctgcgacc agtctggagg attcaaccga
     1321 tctcgttttt gcttagcgtt cttggattga tcttgtacct gatgatctcg ccgtttttgc
     1381 tgttcaaagt cttcaaattg ctgttccaac atacttgcat ccttacctgc aatgatattt
     1441 cgcaccttac gaaatttata tcgtacagta cgaaacaaca catgcaaaca tgtttgcgta
     1501 tacacatgca aataacgttt cgtatgaagg tgtcttaagt caatgatttt taaagaaatg
     1561 tcaatttttg ctctaaagat ctatcaaagc gtttttttac tgctcatgat ttaacactac
     1621 ctaactgctt ttggggtgtc ggggcgcagc cctgacccag tcacgtagcg atagcggagt
     1681 gtatactggc ttactcctct gcaagcctta ccagccgtga tttttgccag atttcatgct
     1741 ctcaacgttc aacaactcca tcatggtttt gccgtccgtt caccgctaaa aagcctcaga
     1801 aatcgggaca ggatgtggga atgtcggacc gcgcacgcgc actcagacat tcaccacctg
     1861 gtcagggctt caccccgaca ccccgcatca gtgcgtaagt gctcaatgtg gcttccggtt
     1921 ctcttccgct tcctc
//
