LOCUS       NZ_CP033766             2101 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain FDAARGOS_536 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP033766
VERSION     NZ_CP033766.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10163231
            Assembly: GCF_003812625.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2101)
  AUTHORS   Campos,J., Goldberg,B., Tallon,L., Sadzewicz,L., Zhao,X.,
            Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S., Geyer,C.,
            Nandy,P., 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  JOURNAL   Unpublished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 2101)
  AUTHORS   Campos,J., Goldberg,B., Tallon,L., Sadzewicz,L., Zhao,X.,
            Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S., Geyer,C.,
            Nandy,P., Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-NOV-2018) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Spring, MD 20993-0002, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CA v. 8.2, SPAdes v. 3.6.0
            Genome Coverage                   :: 637.91065372549x
            Sequencing Technology             :: PacBio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003812625.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 02:02:53
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,010
            CDSs (total)                      :: 4,893
            Genes (coding)                    :: 4,661
            CDSs (with protein)               :: 4,661
            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)              :: 232
            CDSs (without protein)            :: 232
            Pseudo Genes (ambiguous residues) :: 0 of 232
            Pseudo Genes (frameshifted)       :: 83 of 232
            Pseudo Genes (incomplete)         :: 168 of 232
            Pseudo Genes (internal stop)      :: 40 of 232
            Pseudo Genes (multiple problems)  :: 52 of 232
            Pseudo Genes (short protein)      :: 1 of 232
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033766.1.
            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..2101
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_536"
                     /isolation_source="Peripheral blood"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_536"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /collection_date="2016-04-02"
                     /collected_by="Children's National Hospital"
     gene            63..1028
                     /locus_tag="EGX93_RS25480"
                     /old_locus_tag="EGX93_25495"
     CDS             63..1028
                     /locus_tag="EGX93_RS25480"
                     /old_locus_tag="EGX93_25495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            1032..1298
                     /locus_tag="EGX93_RS25485"
                     /old_locus_tag="EGX93_25500"
     CDS             1032..1298
                     /locus_tag="EGX93_RS25485"
                     /old_locus_tag="EGX93_25500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          457..688
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 gcacaggtac gtgatgaata taccacatca aatcacagcc tgcccagatc ggagcaggct
       61 taatgtcaga agataaattc ctttcggact acagcccccg tgatgcagtt tgggataccc
      121 agcgcacgct taccgattct gtcgggggta tctaccagac tgctgctgaa ttcgagcgct
      181 atgcactccg tatggcctcc tgtagcggtt tgttacgttt tggttggtct accatcatgg
      241 aaaccggaga aacgcgccta cggcttcgta gtgcgcaatt ttgccgtgtc cgtcattgcc
      301 ctgtctgcca gtggagaaga accctcatgt ggcaagcccg tttttatcag gctctaccga
      361 aaatcgttgt ggattacccg tcttcccgat ggttgtttct gacgttaact gtcaggaact
      421 gcgagatagg tgaacttgga acagtcctta cagcaatgaa tgcggcgttt aagcgaatgg
      481 aaaagcgaaa ggagctatca cctgttcagg ggtggatcag ggctacggag gtgacgcgag
      541 gtaaggatgg cagcgcacat ccgcattttc actgtctgct gatggtgcaa ccttcttggt
      601 ttaaagggaa gaactacgtt aagcacgaac gttgggtaga actctggcgc gattgcttgc
      661 gggtgaacta tgagccgaat atcgatattc gggcagtaaa aactaagaca ggtgaggttg
      721 tggccaacgt tgccgagcaa ctgcaaagcg cggttgctga aacgctgaaa tactccgtta
      781 aaccggaaga tatggcaaac gatcctgagt ggtttcttga gctgacgcgg cagcttcaca
      841 agcgccgttt tatctcgacc ggtggggcgc taaaaaacgt cctccagttg gatcgagaaa
      901 ccaatgagga tcttgtcatt gccgacgatg taggggatgg cactgatgac gggaagcgga
      961 cggcgtttgt ctgggattca ggtaaacggc gttacaaacg cgcccctgag aaggataaat
     1021 cggattaacg tatgaatatt aatattgaat acctgaatgg aaataagact attggtttat
     1081 tttttttaag aagtgaagcg gtgattcctg acaggtttaa aaaccttatt ttgcttattg
     1141 atggattaag ttttggcaca tttggttttc atccgcacga aggttttgag gatgaattaa
     1201 ttttatatat tcagaaaaca aacgagaggg taaaaactct ttttgtgaaa atagatttaa
     1261 acggtatcaa gtttggattt ttaagaacgc attcttagtt ctggaaaaga gccagcggca
     1321 ggctgaggtg ataggtacga gattgcatgc aatctctagt gctctgtcta tcctgcatta
     1381 tcctcagcat tatcctcagc attatcctca gccttgccaa ctcgacacca atgcaggata
     1441 gacaatccga tgtcaaatgt taacactctg cgagtggtac attttccccg gattatcgtc
     1501 ctgagcctgc cgctggctct ctttctaccg cctcgctttg ctcgttgctc aacgcctcac
     1561 agacacggat taaaatccgc atccgttcac cgttttttaa agtccgttaa aagcatgatg
     1621 ccatctccga gagttaatct cgtcaaatgc taaatcgtgg gggtcccctt tggggttccg
     1681 atttagtgat tgacgacacc accgattaaa aaacttatgc ggggtggatg gtttcacgaa
     1741 gtgaggccat ccacctgtaa gacagggttt tgtttttatt ccctgttttg gtgatcgggt
     1801 gtgtggaaaa ggttggggta agccgttcgg gggtgcttgt tttggggggt taaaattgtg
     1861 gttatttttt gcgcaattct cgcgcgtgat ccttgtattt atacttaagg gataaatggc
     1921 ggatatgaaa tagtggttta gcccagtaat gacgaggctt tgagtgggtt ttgacaggtc
     1981 aaagaaaatg gagcagaatt gaggcgtttt taatcggcgt tggggagtgc gtcaacactc
     2041 cccaacattt cgaatgtgtc acctcagcgg caaactctgg tgacatgtac tggctcgcaa
     2101 t
//
