LOCUS       NZ_CP070142             1312 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1281 plasmid unnamed10.
ACCESSION   NZ_CP070142
VERSION     NZ_CP070142.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357423
            Assembly: GCF_016904495.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1312)
  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  JOURNAL   Unpublished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 1312)
  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                   :: 973.38x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:16:42
            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)                     :: 5,536
            CDSs (total)                      :: 5,406
            Genes (coding)                    :: 5,156
            CDSs (with protein)               :: 5,156
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 250
            CDSs (without protein)            :: 250
            Pseudo Genes (ambiguous residues) :: 0 of 250
            Pseudo Genes (frameshifted)       :: 97 of 250
            Pseudo Genes (incomplete)         :: 168 of 250
            Pseudo Genes (internal stop)      :: 38 of 250
            Pseudo Genes (multiple problems)  :: 49 of 250
            Pseudo Genes (short protein)      :: 4 of 250
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070142.1.
            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..1312
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1281"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1281"
                     /db_xref="taxon:562"
                     /plasmid="unnamed10"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            418..894
                     /locus_tag="I6K11_RS27345"
                     /old_locus_tag="I6K11_27390"
     CDS             418..894
                     /locus_tag="I6K11_RS27345"
                     /old_locus_tag="I6K11_27390"
                     /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          complement(231..339)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.364"
                     /coverage="100.0"
                     /evalue="9.16e-44"
ORIGIN
        1 ttacacatcc tgtcccgatt tctgaggcgt tttaacggtg aacggacggc aaaaacacga
       61 tggagctgtt gaacgtgaaa accacgaaat ctggcaaaaa tcacggctgg cgaggcttgc
      121 ataggagtaa gccagtatac actccgctat cgctacgtga ctgggtcagg gcttcgcccc
      181 gacaccccca aagggcgttg cgttgcacgc aacacccttg cctagaatag atcttttacg
      241 ccgatttata agtggttgtt tttttagtgt gttttttatt tacctgtcgc atccaggatg
      301 acacaacgtt gtcgcatcca ggatgcgaca acacgcaaca aggtgttgcg cagatgtgtc
      361 atgatggctt agatttgaac caacgttagt gcatgggatt ttcagaggga aaaaatcatg
      421 tttattgatt cagaaaaacg actgaaacaa ctttcagatg aggcaaagaa aaacaccgag
      481 gatctcgaag aagcaaagaa aaattcaagg tttacacagg tatccccaaa aggttgggaa
      541 cgtgttcgag agctgctgaa ggatagccaa ggcatatcag cactgaagct gtactcattt
      601 ttagcggagc atatcgatcc tacgtgtggc gctgtcgttg cggatcagca attcctagct
      661 gaaaaacttg gagttagcag aagcacaatt attcggtggc tcaattactt agaatcaaaa
      721 aatgcattag ttagaatccc cgttgctggt aaggtttgtg cgtatgccct cgatccacat
      781 gaagtttgga agggatacaa cactacgaaa aaccatgcag cgtttgtcac taaaacactg
      841 gtcaacaaag acggtgatat tcagcgccga atcatggcca tgttttcaaa ttgagctagc
      901 ggcaggcgga caatcagggg ctacgtgtta acgttctgac catgattgtc tatcctgcat
      961 tgctcttttg ccgcctcaaa atcctttgcg tgtttttgct ccccgttctc cagaaaaaac
     1021 cgagccgcca cggttccggc agcgccttga gcgctaccgg aaaccgtctg gggagaaccc
     1081 cagaccccca tcgctgcaac accgacggtc tacgaccacc taccaaccgc atggctgcct
     1141 gttccgtgca aatgggcttt gcagggggct ggcgcggttc ctggcgacct gaaagcccct
     1201 ggttaggggt atcggcgcgc ttgacctcct gagagcctct gtaagcgttt ttcgcgcctt
     1261 ccatgccctg gcgggcatct aaaacccgtt tcgtgcgtct gagagctttt ga
//
