LOCUS       NZ_CP070154             1627 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1285 plasmid unnamed3.
ACCESSION   NZ_CP070154
VERSION     NZ_CP070154.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357427
            Assembly: GCF_016904555.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1627)
  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  JOURNAL   Unpublished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 1627)
  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                   :: 1142.84x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:22:04
            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)                     :: 4,977
            CDSs (total)                      :: 4,862
            Genes (coding)                    :: 4,599
            CDSs (with protein)               :: 4,599
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 263
            CDSs (without protein)            :: 263
            Pseudo Genes (ambiguous residues) :: 0 of 263
            Pseudo Genes (frameshifted)       :: 148 of 263
            Pseudo Genes (incomplete)         :: 120 of 263
            Pseudo Genes (internal stop)      :: 33 of 263
            Pseudo Genes (multiple problems)  :: 35 of 263
            Pseudo Genes (short protein)      :: 5 of 263
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070154.1.
            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..1627
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1285"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1285"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            <1..377
                     /locus_tag="I6K15_RS24580"
                     /old_locus_tag="I6K15_24580"
     CDS             <1..377
                     /locus_tag="I6K15_RS24580"
                     /old_locus_tag="I6K15_24580"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=3
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_204628468.1"
                     /translation="LKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERKLLHVLATA
                     EKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTGELCYKKDR
                     ILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(581..1495)
                     /locus_tag="I6K15_RS24585"
                     /old_locus_tag="I6K15_24585"
     CDS             complement(581..1495)
                     /locus_tag="I6K15_RS24585"
                     /old_locus_tag="I6K15_24585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     Typing          complement(582..1495)
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.909"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggctgaagaa acggatcgga ttcatcagga agctcggaga acagaccgca cgacagagac
       61 agattattga cctgatcgac aacgaagccg gactcacaga acaggaacgc aaacttctcc
      121 acgtactggc aacagcggaa aaaaacgact tacaggcaca ggagagcgaa cgaaaacagg
      181 cggtccaaaa acgaatcgag ggaaaaaaac aacgacggga acgcaatcac cggctctttc
      241 tcgcggctgg gctactgatc gaagcaggac tggtagacac aaaaacaggc gagctatgct
      301 ataaaaaaga caggatatta caagcactta aggaacttaa gtacgatctg gagacatccc
      361 caaacccaga cgcgtaagtg cctccatccg tgttccgatt ccctggtgct tcctcgctca
      421 ttcgctcgct acgctcggtc atgagactgc ggcgagcact accaccacaa tcacgcggaa
      481 agccgcgcca ttgcagggct gaacggggaa aaacggcaaa aaacctgctg ctcaaaaaga
      541 cgccagaaag gcgctgttat ctgatatagg cttatttggt ctactctacg agacctcgtt
      601 ttttcagttg gtaataccag gcgcgactga tccctaatgc ctcccacggt ttcagcgtgc
      661 gtgcagatgt agctactgtg ctgcgcttag acttagaacc gcccttgcga ccgcgtgcag
      721 cctgaatttc tggcgtgtgc gtatcagcca catactgtgc gaaagtttcc ggcgtgaagt
      781 tcctgtgcgt gtatttcgca atgctcttgc caatagcccg acattcagcc agtgaaagcg
      841 gaacgggaag cgatgcattg tacatttcga cacgctggat caccgcttca agccactgtg
      901 agaacgctgg ccagccctga cgaatcgccc tgtaagccca tttgcgcgtc atttcgaaca
      961 ggtggcagtt tcgccccatc ccgtaatgtt tatcgatgct acgacgctct gaggcgctca
     1021 aatcgagata atcagccagt tcatcgaggg tataggcttc ctcgcgccac tccatcacca
     1081 gccattccag gtggaacgga tttttgcaaa tcaggccgct gtagttcaca tccgcacaaa
     1141 gtttctcaca cagcgaacgt tcaaccgctg cggcatattt cagcgcctta accgaggcat
     1201 caggcgcggt tctcacggcg atgttgagtg cgtagagcag gtgagcgtgt ccgttcacag
     1261 gatttttaac ggtgatgttc ggcgcgggag cgttccggtc gctccagtca atcgcagccc
     1321 cctcgcggtc aacgtcaaaa accagccaga actgtgcatg aggctggttc tgctggatat
     1381 accgtgcaag aagcgcgcgc cctttgccgg agatacgaag gccgaaagcg agatcatccg
     1441 tgtgataggg acgatggggt aaattttcgt cgaagtattg aagcgcggcg ctcatgtgtt
     1501 acgattctct ccgggttatg cgacctacac gccctctgta tttcatgttg aatcttgccg
     1561 gatctggaca tgatttcagg ggcgtttgtt tttcagtcgc ttacactaca cccaacggca
     1621 aatcctg
//
