LOCUS       CP077228                3182 bp    DNA     circular BCT 28-JUN-2021
DEFINITION  Escherichia coli strain FDAARGOS_1384 plasmid unnamed3, complete
            sequence.
ACCESSION   CP077228
VERSION     CP077228.1
DBLINK      BioProject: PRJNA231221
            BioSample: SAMN16357526
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3182)
  AUTHORS   Walk,S., Carlson,P., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J.,
            Ott,S., Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J.,
            Nadendla,S. and Yan,Y.
  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  JOURNAL   Unpublished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 3182)
  AUTHORS   Walk,S., Carlson,P., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J.,
            Ott,S., Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J.,
            Nadendla,S. and Yan,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-JUN-2021) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, White
            Oak, MD 20903, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 9.0.0, HGAP v. 4.0, SPAdes v. 3.14.1
            Genome Coverage                   :: 657.97x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/21/2021 16:56:49
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,204
            CDSs (total)                      :: 5,075
            Genes (coding)                    :: 4,845
            CDSs (with protein)               :: 4,845
            Genes (RNA)                       :: 129
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 230
            CDSs (without protein)            :: 230
            Pseudo Genes (ambiguous residues) :: 0 of 230
            Pseudo Genes (frameshifted)       :: 92 of 230
            Pseudo Genes (incomplete)         :: 142 of 230
            Pseudo Genes (internal stop)      :: 28 of 230
            Pseudo Genes (multiple problems)  :: 28 of 230
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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..3182
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1384"
                     /isolation_source="Seth Lab isolate"
                     /host="Seth Lab strain"
                     /culture_collection="FDA:FDAARGOS_1384"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: MT"
                     /collected_by="Montana State U"
     gene            complement(join(3089..3182,1..374))
                     /locus_tag="I6L14_25915"
     CDS             complement(join(3089..3182,1..374))
                     /locus_tag="I6L14_25915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014728260.1"
                     /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="QXA06192.1"
                     /translation="MSDTNKFRSLRLARAWSQEQLAELSGMSVRTVQRIENGDQPSLET
                     LSALAAVFEVSVADLSGPDAHGDDALDQKIAEAKSKIAEEGRFYRSVITAVVVCALLLV
                     LNHFTAPASAWSFWVAGIWCALLVIRGMRTFVLRGLISRWQQKRLRRMLRR"
                     /name="helix-turn-helix domain-containing protein"
     gene            2108..2221
                     /locus_tag="I6L14_25920"
     CDS             2108..2221
                     /locus_tag="I6L14_25920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QXA06191.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGN"
                     /name="replication initiation protein"
     gene            complement(2577..3077)
                     /locus_tag="I6L14_25925"
     CDS             complement(2577..3077)
                     /locus_tag="I6L14_25925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017456310.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QXA06193.1"
                     /translation="MDIADFLRNTPVWVWILLAFLLRRGFAALYDREMTTGRLFFLPIL
                     FLVWGAYGVITETKLAGVSLTMMTAGLLVGTALGYRLWRSQPPLRNSDNPGMIIRAGTP
                     LTLGLIVITFCMKFILVSVIDLHPGLRSSAIFCMLFGGVTGLVDGVFWGGTLRLFIPWY
                     SKR"
                     /name="hypothetical protein"
     Typing          1731..2221
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.129"
                     /coverage="94.0"
                     /evalue="1.66e-162"
ORIGIN
        1 gcacaccaga tccccgcaac ccaaaatgac catgcgctgg ccggggccgt aaagtggtta
       61 agaacaagca acagcgcgca gacgacgaca gccgtaatta ctgatcggta aaaacggcct
      121 tcctcagcta ttttgctctt cgcttcggca attttctggt caagagcgtc atcgccatgc
      181 gcatcagggc cggaaagatc cgccacgctc acctcaaata cagcagccag ggcactcagt
      241 gtttccaggc ttggctgatc gccgttctcg atacgctgaa ccgtgcgcac gctcatcccg
      301 gacagttcag caagctgctc ctgggaccag gcacgcgcaa gacgcagcga cctgaatttg
      361 ttggtatcac tcatttcctg tctccgaatg gaagatggtc agcacacagt gttgaccgcg
      421 taatcctgcg cgaccacgat cttaacccga cagtaacgtg acagcggtct gacatgccgc
      481 attgaggtct ttgaaaccgt aacttcagaa gcatgtacgg tcagatttaa cataagagtt
      541 cattgtacgc accgttaaaa cgcgctcagc gcgcttctgg cgcaaaaacc gtaaaaatgg
      601 atgttttccc ccgggtaaac cggaaaaatg cgtcaggaac gctttcagcg cgttgcatga
      661 ctatgcatga aactgaatgg cgatcggttt gggcgcgtct gatgcccata aggcgtattt
      721 tcggacgttt tcagccctga taagaagaaa tcagactgta gttacagacg agtcgtgagc
      781 gattcactac gggagtcgtc ggcgagtcat ccagtatttt tcctcgcgac tctctggcga
      841 ctcgccttct ctgaacacca gagcgacagt gtgttgagtc atcgataaat caccgacgac
      901 tcgttgccga gtcatccagt agtcgccgac gagccgcttt tgtataaatc cgaataagaa
      961 aatatatttt tcaaaccata acaacatgat ttaaaaaaca aatcagaaaa aagttagttt
     1021 tgcgtggggt gtgggcatcc tgggaatgag aacagactcg cgtttttctg gaggaacagc
     1081 ggggattttt gattaaacaa tagtcaccgc agagcggaat tttatgcaac gctggctgtg
     1141 cggcacgggg atttttaatc ccccggcccg ttattcatct ccacgggcga cggggataca
     1201 taaacccgac agcagaggac gggtgagcgc gaatcccaga gatgatgaaa aaagaggcag
     1261 agaaacgcgc ccaggtacgt tttatcttat tgctttggtg ttgtccaggg tgtcggggct
     1321 gtgccctgac caggtggcat ttgtctgatt gcgcgtgcgc ggtccgacaa atgcacatcc
     1381 tgccccgtcc tgtacgtgtt tttttcacca gaacaacttc acgaagtggc ggatgaacgc
     1441 taccaacgtt gccgggaacg cttcggcgat gatggcataa cgggctgata caggcagctc
     1501 ccggagacgg acacagcttg cctgtgagcg gatgccggga gccgacaagc ccgtcagggc
     1561 gcgtcagcgg gttttagcgg gtgtcggggc gcagccatga cccagtcacg tagcgatagc
     1621 ggagtgtata ctggcttaat atgttaaatc ggagtggtaa ttcagggaag tgcttcatgt
     1681 ggcaaaggaa aaatgtggct atcgtgcgta agtgcaacat gtaggtaaag gtgaaatgac
     1741 gcctcctcgc tcactcggtc gctacgctcc tgccgtgaga ctgcggcggg cgttaccggc
     1801 tcacaaataa cgggatacgc aggcagtgct caaatcagga aggaccggaa aaaggatgcg
     1861 gcgtagccgt ttttccatag gctccgcccc cctgacaagc atcacgaaat ctgacgctca
     1921 aatcagtggc ggcgaaaccc gacaggacta taaagatccc aggcgtttcc ccctggtagc
     1981 tccctcgtgc gctctcctgt tcctgccttt cggtttaccg gtgtcattcc gctgttatgg
     2041 ccgcgtttgt ctcattccac gcctgacact cagttccggg taggcagttc gctccaagct
     2101 ggactgtatg cacgaacccc ccgttcagtc cgactaccac gcccgttccg gtaactatca
     2161 acttgagtcc aacccggaaa gacacgacaa atcgccagtg gcggtagcca ttggtaactg
     2221 agatgtgcga gagatttatc tggagttctt gaagtggggg cctgagtgcg gctacactgg
     2281 aaggacagtt taggtgactc gtctcgcaca agacagttac caggttaagc agttccccaa
     2341 ctgacctaac cttcgatcaa accacctccc caggtggttt tttcgttttc agagcaagag
     2401 attacgcgca gaaaaaaagg atctcaagaa gatccttttt acaggagcga ttatcgtctt
     2461 catccatgaa ggcgtttgaa gattaaaccg gcctatttca tagatcgtaa aatcagggtt
     2521 ttgggatggc cgatgaaacc ccataaaaac ccataaatac atacacctac taacaatcat
     2581 cttttgctgt accagggtat gaaaagtctc agggttccac cccagaatac gccatcaaca
     2641 agtcctgtca caccgccaaa taacatgcaa aaaattgcgg atgaccgtaa tccggggtgc
     2701 agatcaatga ctgagacaag tataaacttc atgcaaaaag taattacaat cagtcccaaa
     2761 gtcagcggtg tcccggccct gataatcatg cccggattat ctgaatttct cagcgggggc
     2821 tgtgagcgcc acaacctgta tccaagagcg gtgcctacga gcagtcctgc cgtcatcatt
     2881 gtaaggctta cgccagcaag ttttgtctca gtgataacac catatgctcc ccatacaagg
     2941 aaaagtatcg ggagaaaaaa caaacgcccg gttgtcatct cccggtcata aagagcagca
     3001 aaaccgcgtc gtagtaaaaa agccagcagg atccataccc agacgggggt atttcgtaaa
     3061 aagtctgcaa tatccataag tattcccatt atcgccgcag catccgcctc agtcgtttct
     3121 gttgccatct gctgatcagc ccgcgcaaaa cgaacgttct catgccacga ataaccagca
     3181 gc
//
