LOCUS       NZ_CP069466             1582 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1249 plasmid unnamed7.
ACCESSION   NZ_CP069466
VERSION     NZ_CP069466.1
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 1582)
  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  JOURNAL   Unpublished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 1582)
  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
            CP069466.1.
            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..1582
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1249"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1249"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            533..1009
                     /locus_tag="I6J79_RS25300"
                     /old_locus_tag="I6J79_25300"
     CDS             533..1009
                     /locus_tag="I6J79_RS25300"
                     /old_locus_tag="I6J79_25300"
                     /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          52..150
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(346..454)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.182"
                     /coverage="100.0"
                     /evalue="4.23e-47"
     Typing          complement(1241..1501)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 gaggaagcgg aagagaaccg gaagccacat tgagcactta cgcactgatg cggggtgtcg
       61 gggtgaagcc ctgaccaagt ggtaatcgta tcggcgtgca tgcgcggtta tacgattaca
      121 catcctgtcc cgatttctga ggcgttttaa cggtgaacgg acggcaaaaa cacgatggag
      181 ctgttgaacg tgaaaaccac gaaatctggc aaaaatcacg gctggcgagg cttgcatagg
      241 agtaagccag tatacactcc gctatcgcta cgtgactggg tcagggcttc gccccgacac
      301 ccccaaaggg cgttgcgttg cacgcaacac ccttgcctag aatagatctt ttacgccgat
      361 ttgtaagtgg ttgttttttt agtgtgtttt ttatttacct gtcgcatcct ggatgacaca
      421 acgttgtcgc atcctggatg cgacaacacg caacaaggtg ttgcacagat gtgtcatgat
      481 ggcttagatt tgaaccaacg ttagtgcatg ggattttcag agggaaaaaa tcatgtttat
      541 tgattcagaa aaacgactga aacaactttc agatgaggca aagaaaaaca ccgaggatct
      601 cgaagaagca aagaaaaatt caaggtttac acaggtatcc ccaaaaggtt gggaacgtgt
      661 tcgagagctg ctgaaggata gccaaggcat atcagcactg aagctgtact catttttagc
      721 ggagcatatc gatcctacgt gtggcgctgt cgttgcggat cagcaattcc tagctgaaaa
      781 acttggagtt agcagaagca caattattcg gtggctcaat tacttagaat caaaaaatgc
      841 attagttaga atccccgttg ctggtaaggt ttgtgcgtat gccctcgatc cacatgaagt
      901 ctggaaggga tacaacacta cgaaaaacca tgcagcgttt gtcactaaaa cactggtcaa
      961 caaagacggt gatattcagc gccgaatcat ggccatgttt tcaaattgag ctagcggcag
     1021 gcggacaatc aggggctacg tgttaacgtt ctgaccatga ttgtctatcc tgcattgctc
     1081 ttttgccgcc tcaaaatcct ttgcgtgttt ttgctccccg ttctccagaa aaaaccgagc
     1141 cgccacggtt ccggcagcgc cttgagcgct accggaaacc gtctggggag aaccccagac
     1201 ccccatcgct gcaacaccga cggtctacga ccacctacca accgcatggc tgcctgttcc
     1261 gtgcaaatgg gctttgcagg gggctggcgc ggttcctggc gacctgaaag cccctggtta
     1321 ggggtatcgg cgcgcttgac ctcctgagag cctctgtaag cgtttttcgc gccttccatg
     1381 ccctggcggg catctaaaac ccgtttcgtg cgtctgagag cttttgagcg cgtttgaggg
     1441 gctatctggc gactcatccc caaaagaaca acaccgggat caccgacaac atgcgagagg
     1501 tgatcccgct cgccgcaagt cgatgaccga gcgtagcgag cgaatcgacg aggaagcgga
     1561 agagaaccgg aagccacatt ga
//
