LOCUS       NZ_CP070003             1570 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1300 plasmid unnamed7, complete
            sequence.
ACCESSION   NZ_CP070003
VERSION     NZ_CP070003.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357442
            Assembly: GCF_016903915.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1570)
  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  JOURNAL   Unpublished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 1570)
  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                   :: 1255.12x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:03:37
            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)                     :: 5,439
            CDSs (total)                      :: 5,322
            Genes (coding)                    :: 5,075
            CDSs (with protein)               :: 5,075
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 247
            CDSs (without protein)            :: 247
            Pseudo Genes (ambiguous residues) :: 0 of 247
            Pseudo Genes (frameshifted)       :: 94 of 247
            Pseudo Genes (incomplete)         :: 157 of 247
            Pseudo Genes (internal stop)      :: 46 of 247
            Pseudo Genes (multiple problems)  :: 48 of 247
            Pseudo Genes (short protein)      :: 4 of 247
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070003.1.
            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..1570
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1300"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1300"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(1562..1570,1..282)
                     /locus_tag="I6K30_RS26805"
                     /old_locus_tag="I6K30_26810"
     CDS             join(1562..1570,1..282)
                     /locus_tag="I6K30_RS26805"
                     /old_locus_tag="I6K30_26810"
                     /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_157806413.1"
                     /translation="MIVYPALLFCRLKILCVFLLPVLQKKPSRHGSGSALSATGNRLGR
                     APDPHRCNTDGLRQPTNRMAACSVQMGFAGGWRGSWRPESPWLGASARLTS"
                     /name="hypothetical protein"
     gene            1038..1514
                     /locus_tag="I6K30_RS26810"
                     /old_locus_tag="I6K30_26815"
     CDS             1038..1514
                     /locus_tag="I6K30_RS26810"
                     /old_locus_tag="I6K30_26815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          536..634
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.0"
                     /coverage="100.0"
                     /evalue="6.26e-40"
     Typing          complement(851..959)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(176..436)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.366"
                     /coverage="100.0"
                     /evalue="3.98e-101"
ORIGIN
        1 tatcctgcat tgctcttttg ccgcctcaaa atcctttgcg tgtttttgct ccccgttctc
       61 cagaaaaaac cgagccgcca cggttccggc agcgccttga gcgctaccgg aaaccgtctg
      121 gggagagccc cagaccccca tcgctgcaac accgacggtc tacgacaacc taccaaccgc
      181 atggctgcct gttccgtgca aatgggcttt gcagggggct ggcgcggttc ctggcgacct
      241 gaaagcccct ggttaggggc atcggcgcgc ctgacctcct gagagcctct gtaagcgttt
      301 ttcgcgcctt ccatgccctg gcgggcatct aaaacccgtt tcgtgcgtct gagagcttgt
      361 gagcgcgttt gaggggctat ctggcgactc atccccgaaa gaacaacaac gggattaccg
      421 acaacatgcg agaggtgatc ccgctcgccg caagtcgatg accgagcgta gcgagcgaat
      481 cgacgaggaa gcggaagaga accggaagcc acattgagca cttacgcact gatgcggggt
      541 gtcggggtga agccctgaca aggtggtaat cgtatcggcg tgcgtgcgcg gttatacgat
      601 tacacatcct gtcccgattt ctgaggcgtt ttaacggtga acggacggca aaaacacgat
      661 ggagctgttg aacgtgaaaa ccacgaaatc tggcaaaaat cacggctggc gaggcttgca
      721 gaggagtaag cgaggcttgc agaggagtaa gccagtatac actccgctat cgctacgtga
      781 ctgggtcagg gcttcgcccc gacaccccca aagggcgttg cgttgcacgc aacacccttg
      841 cctagaatag atcttttacg ccgatttgta agttgttgtt tttttagtgt gttttttatt
      901 tacctgtcgc atccagggtg acacaacgtt gtcgcatcct ggatgcgaca acacgcaaca
      961 aggtgttgca cggatgtgtc atgatggctt agatttgaac caacgttagt gcatgggatt
     1021 ttcagaggga aaaaatcatg tttattgatt cagaaaaacg actgaaacaa ctttcagatg
     1081 aggcaaagaa aaacaccgag gatctcgaag aagcaaagaa aaattcaagg tttacacagg
     1141 tatccccaaa aggttgggaa cgcgttcgag agctgctgaa ggatagccaa ggcatatcag
     1201 cactgaagct gtactcattt ttagcggagc atatcgatcc tacgtgtggc gctgtcgttg
     1261 cggatcagca attcctagct gaaaaacttg gagttagcag aagcacaatt attcgttggc
     1321 tcaattactt agaatcaaaa aatgcattag ttagaatccc cgttgctggt aaggtttgtg
     1381 cgtatgccct cgatccacat gaagtctgga agggatacaa cactacgaaa aaccatgcag
     1441 cgtttgtcac taaaacactg gtcaacaaag acggtgatat tcagcgccga atcatggcca
     1501 tgttttcaaa ttgagctagc ggcaggcgga caatcagggg ctacgtgtta acgttctgac
     1561 catgattgtc
//
