LOCUS       NZ_CP069934             1549 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1302 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP069934
VERSION     NZ_CP069934.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357444
            Assembly: GCF_016903435.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1549)
  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  JOURNAL   Unpublished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 1549)
  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                   :: 1342.09x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:02:54
            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)                     :: 5,040
            CDSs (total)                      :: 4,924
            Genes (coding)                    :: 4,706
            CDSs (with protein)               :: 4,706
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 218
            CDSs (without protein)            :: 218
            Pseudo Genes (ambiguous residues) :: 0 of 218
            Pseudo Genes (frameshifted)       :: 80 of 218
            Pseudo Genes (incomplete)         :: 142 of 218
            Pseudo Genes (internal stop)      :: 43 of 218
            Pseudo Genes (multiple problems)  :: 45 of 218
            Pseudo Genes (short protein)      :: 4 of 218
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069934.1.
            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..1549
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1302"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1302"
                     /db_xref="taxon:562"
                     /plasmid="unnamed1"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(655..945)
                     /locus_tag="I6K32_RS00005"
                     /old_locus_tag="I6K32_00005"
     CDS             complement(655..945)
                     /locus_tag="I6K32_RS00005"
                     /old_locus_tag="I6K32_00005"
                     /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            complement(993..1469)
                     /locus_tag="I6K32_RS00010"
                     /old_locus_tag="I6K32_00010"
     CDS             complement(993..1469)
                     /locus_tag="I6K32_RS00010"
                     /old_locus_tag="I6K32_00010"
                     /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          2..108
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.074"
                     /coverage="98.0"
                     /evalue="1.18e-47"
     Typing          complement(304..402)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.0"
                     /coverage="100.0"
                     /evalue="6.26e-40"
     Typing          502..762
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.366"
                     /coverage="100.0"
                     /evalue="3.98e-101"
ORIGIN
        1 tgcgtgttgt cgcatccagg atgcgacaac gttgtgtcac cctggatgcg acaggtaaat
       61 aaaaaacaca ctaaaaaaac aacaacttac aaatcggcgt aaaagatcta ttctaggcaa
      121 gggtgttgcg tgcaacgcaa cgccctttgg gggtgtcggg gcgaagccct gacccagtca
      181 cgtagcgata gcggagtgta tactggctta ctcctctgca agcctcgcca gccgtgattt
      241 ttgccagatt tcgtggtttt cacgttcaac agctccatcg tgtttttgcc gtccgttcac
      301 cgttaaaacg cctcagaaat cgggacagga tgtgtaatcg tataaccgcg cacgcacgcc
      361 gatacgatta ccaccttgtc agggcttcac cccgacaccc cgcatcagtg cgtaagtgct
      421 caatgtggct tccggttctc ttccgcttcc tcgtcgattc gctcgctacg ctcggtcatc
      481 gacttgcggc gagcgggatc acctctcgca tgttgtcggt aatcccgttg ttgttctttc
      541 ggggatgagt cgccagatag cccctcaaac gcgctcacaa gctctcagac gcacgaaacg
      601 ggttttagat gcccgccagg gcatggaagg cgcgaaaaac gcttacagag gctctcagga
      661 ggtcaggcgc gccgatgccc ctaaccaggg gctttcaggt cgccaggaac cgcgccagcc
      721 ccctgcaaag cccatttgca cggaacaggc agccatgcgg ttggtaggtt gtcgtagacc
      781 gtcggtgttg cagcgatggg ggtctggggc tctccccaga cggtttccgg tagcgctcaa
      841 ggcgctgccg gaaccgtggc ggctcggttt tttctggaga acggggagca aaaacacgca
      901 aaggattttg aggcggcaaa agagcaatgc aggatagaca atcatggtca gaacgttaac
      961 acgtagcccc tgattgtccg cctgccgcta gctcaatttg aaaacatggc catgattcgg
     1021 cgctgaatat caccgtcttt gttgaccagt gttttagtga caaacgctgc atggtttttc
     1081 gtagtgttgt atcccttcca gacttcatgt ggatcgaggg catacgcaca aaccttacca
     1141 gcaacgggga ttctaactaa tgcatttttt gattctaagt aattgagcca acgaataatt
     1201 gtgcttctgc taactccaag tttttcagct aggaattgct gatccgcaac gacagcgcca
     1261 cacgtaggat cgatatgctc cgctaaaaat gagtacagct tcagtgctga tatgccttgg
     1321 ctatccttca gcagctctcg aacgcgttcc caaccttttg gggatacctg tgtaaacctt
     1381 gaatttttct ttgcttcttc gagatcctcg gtgtttttct ttgcctcatc tgaaagttgt
     1441 ttcagtcgtt tttctgaatc aataaacatg attttttccc tctgaaaatc ccatgcacta
     1501 acgttggttc aaatctaagc catcatgaca catccgtgca acaccttgt
//
