LOCUS       NZ_CP069556             1190 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1253 plasmid unnamed7.
ACCESSION   NZ_CP069556
VERSION     NZ_CP069556.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357395
            Assembly: GCF_016889865.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1190)
  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  JOURNAL   Unpublished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 1190)
  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                   :: 1090.86x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:01:47
            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)                     :: 4,554
            CDSs (total)                      :: 4,441
            Genes (coding)                    :: 4,315
            CDSs (with protein)               :: 4,315
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 126
            CDSs (without protein)            :: 126
            Pseudo Genes (ambiguous residues) :: 0 of 126
            Pseudo Genes (frameshifted)       :: 49 of 126
            Pseudo Genes (incomplete)         :: 81 of 126
            Pseudo Genes (internal stop)      :: 27 of 126
            Pseudo Genes (multiple problems)  :: 27 of 126
            Pseudo Genes (short protein)      :: 3 of 126
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069556.1.
            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..1190
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1253"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1253"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            304..1011
                     /locus_tag="I6J83_RS22550"
                     /old_locus_tag="I6J83_22550"
     CDS             304..1011
                     /locus_tag="I6J83_RS22550"
                     /old_locus_tag="I6J83_22550"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          305..1011
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cagcactcca agttatccac aggctcgtcg ttaagttttt agatcttgtt tttaagatct
       61 tgtttttaat acttgtttta gcgccaaaat tccttataga aaacaaaatg ttacaacgct
      121 ataggtgata tgatttaagg taaaggtgat ataatttaag gtgcttgggt gaggtaattt
      181 aaggtaaagg tgaggagatt taaggtaata ttcacaggaa aatggggggt gaaaatataa
      241 ttgctcacca atgctaaagg tgataggttt ttatttcacc tcatttttgg cctggtggtt
      301 aaaatgacat caaaccctct gatagcctat aagtccaatg cgctggttga ggccagttac
      361 aagctaactt tacaagaaca gcgtttctta ttgctctgca taagccgact taactccggt
      421 actgacgtag cttcacctga attgcaaaag acaatgacca ttacagctgc ggaatatttt
      481 gattcattcc ctgatatggg gcggaaaaat gccgaggttc agctacagga agcgatcgat
      541 cgtttgtggg acaggtcgat cattctcaag gacgacgaga agcgcgagga gttccgctgg
      601 attcagtatc gggcacagta cgcgagggga gaggggaaag cacaaatcac tttttctgac
      661 gcggtaatgc cttatctgac acagttgaag gggcaattca ccagagtcgt cattaaaaat
      721 atttctaatt tatcaagaag ttacagcata agaatatacg aaattctcca gcaattccgc
      781 agtactgggg aacgtattat cgccctcgat gattttaaat catcactgat gcttgatggt
      841 aaatataaag atttcaaaac gttaaacagg gatctaataa aaccctgtgt tgacgaactg
      901 aacaaaaaaa gcgacctggc tgtaacggtt gagacgatca aaaaggggcg cacggttgta
      961 gccctgcatt ttcgcttcaa ggaagacaaa cagatcaaga tgacgatcta gaatcgattt
     1021 taaggcacct aaaacgctcc ctgctgcgtt ttttttgtgt tagtagtgcg aaggtactat
     1081 tgaagtgaaa aattgcgtca aaagcgctct aaagcagcga aaaaagaacc cccatttttc
     1141 gggggcggaa aaacaaaact atgcttgcat tatgtgtgtg cttcttgcat
//
