LOCUS       NZ_CP070028             4286 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1337 plasmid unnamed6, complete
            sequence.
ACCESSION   NZ_CP070028
VERSION     NZ_CP070028.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357479
            Assembly: GCF_016903995.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4286)
  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  JOURNAL   Unpublished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 4286)
  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                   :: 909.52x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:04:30
            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)                     :: 4,873
            CDSs (total)                      :: 4,751
            Genes (coding)                    :: 4,559
            CDSs (with protein)               :: 4,559
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 192
            CDSs (without protein)            :: 192
            Pseudo Genes (ambiguous residues) :: 0 of 192
            Pseudo Genes (frameshifted)       :: 60 of 192
            Pseudo Genes (incomplete)         :: 133 of 192
            Pseudo Genes (internal stop)      :: 29 of 192
            Pseudo Genes (multiple problems)  :: 32 of 192
            Pseudo Genes (short protein)      :: 4 of 192
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070028.1.
            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..4286
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1337"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1337"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(3174..4286,1..135)
                     /locus_tag="I6K67_RS23520"
                     /old_locus_tag="I6K67_23520"
     CDS             join(3174..4286,1..135)
                     /locus_tag="I6K67_RS23520"
                     /old_locus_tag="I6K67_23520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001522448.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_001522448.1"
                     /translation="MIKFVDLFSGTGGIRLGFEQAMKEIGLSTKCVKSSEIDKKACETY
                     KLNFDEESYCDIHDVDIDESFDVLLAGFPCQAFSYAGKQLGFADTRGTLFFEVERIIKK
                     NKPKLCLLENVRGLTSHDKGRTFSTILKSLHDLGYHVEYRLLNTSNFGVPQNRVRIYII
                     ASLKKEVTLTIPNDLGAKDTHNYKPSKGGHDFYTESKVSDILEDSPDKSYDCSDWFKQR
                     LEDIFKGDLNKVHGIRLIDTRNGNSLHSWDLGLKGECSNDEIAFMNSLIANRRKHIFGT
                     HQDGKALSKAQIETFFKHSETTNIIKNLIKKGYLKEKNGLYNPVCGNMSFEVFKFLDPN
                     KVSITLTASDANRLGVYHNNRLRRLTPRECARLQGYPDSYILHPKDSMAYKQLGNAVSV
                     PVIKNIFLDIMKNNFI"
                     /name="DNA cytosine methyltransferase"
     gene            950..1144
                     /locus_tag="I6K67_RS23525"
                     /old_locus_tag="I6K67_23525"
     CDS             950..1144
                     /locus_tag="I6K67_RS23525"
                     /old_locus_tag="I6K67_23525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041631.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2167..3177
                     /locus_tag="I6K67_RS23535"
                     /old_locus_tag="I6K67_23535"
     CDS             2167..3177
                     /locus_tag="I6K67_RS23535"
                     /old_locus_tag="I6K67_23535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000395670.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001522447.1"
                     /translation="MEFQELENSACLYWPKELAERAASISAISPLIETQDEFLSILTIS
                     TNKPTSCFDAVRLCNKISPNLFVKHLMVLSDIGGERLHRFFKDLDKIYPDRIMEFNIGN
                     NSYSYQFNSNRAWTTKNLNVEKSRLLQPVSDFTREMLDVCMLILWGGNTINNTNLPTEI
                     ENNCILGNLIGNKEAIEQFVKERYIMVSRQTGGATANDLGHICEIFIKEKLYKLIDDNI
                     SLDGHHIDGVTHNDKDLTTFDIVAKNTITKKCVGIEISFQVTTNSTIERKAGLAKSRRD
                     LLNSIGHKIAYVIDGSGNFQRSNAIKTIINHSDMTVNFSDNGINSLATFICETLK"
                     /name="hypothetical protein"
     Typing          complement(436..691)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.899"
                     /coverage="89.0"
                     /evalue="2.61e-118"
     Typing          complement(816..914)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.0"
                     /coverage="100.0"
                     /evalue="2.89e-43"
     Typing          complement(1225..1310)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          1332..1877
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.565"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aggctacaag gttacccaga ctcatatatc ttacacccaa aagatagcat ggcatataaa
       61 caattgggga atgctgtaag cgttccagtc attaaaaata tttttcttga tataatgaag
      121 aataacttca tataaactat attactagca aaactgctct atggttattt aattaaattt
      181 aacagattta ccataatgtc gcattgcgcg caccgctaaa acgcgctgaa agcgattctg
      241 ccgcgaacac cgcaaaaaga gatgttctcc ccggggtaaa ccggaaaaat gcgtcaggat
      301 cgctttcagc tcactgcata gctatgcatg aaagtgaatg acgatcggtt tgggcgcata
      361 cagtgcccat gagacacatt ttcggacatt ttcagttcgt gaatccctga ctcattgcta
      421 catatctgaa cagacacccc tagcagcgcc cccaggggtg tcctgtaaaa aaacacaccg
      481 cgccgctagc agcaccccta atataagatg atgtttttta tgaaaatagt cagtaccacc
      541 cctaaaaagc ggtgttggcg cagctacaac accgcgccga caccgctttt ttaaatatca
      601 caaagagagc aagaagaact aatttgtcat aactctctat ttataaagaa aaatcagcaa
      661 aaacttgttt ttgcgtgggg tgtgggcatt tcaggcatga gaacagactc gcgtttttcc
      721 ggagtatcag cggaattatt gattaagaaa cactcgacgc agagcgaaat tttatgcaac
      781 agcggctgca ctgcacaggg attatttatc agttgatatg ctgtgccatg atacgtccta
      841 aagaaacagg acaggatgtg caattgtaat accgtcgccc gcaacgtctt acaattacca
      901 cctggtcagg gtccccccga cacccggaac tgacggagaa caacggaagg tgaacaaaca
      961 acaacaaact gcgctgaata tggcgcgatt tatcaaaagc cagagcctga cactgcttga
     1021 aaaactggat gctctggatg ccgacgaaca ggcggccatg tgcgaacgac tgcacgaact
     1081 cgcagaagaa ctccagaaca gcatccagat tcgctttgag gccgaaagtg aaacaggaac
     1141 ataacgaagc tgacggaggc ggtcacggct ttcccgtggg cgttttcgtc agcagacaag
     1201 cccgtcaggg cgcgtcaggg ggttttagcg ggtgtcgggg cgcagccatg acccagtcac
     1261 gtagcgatag cggagtgtat actggcttaa ccatgcggca tcagtgcaga ttgtaagaaa
     1321 agagcgccat atgcggtgtg aaatgccgca cagatgcgta aggagaaaat gcacgttccg
     1381 gcgctcttcc gcttcctcgc tcactgactc gctacgctcg gtcgttcggc tgcggcgagc
     1441 ggtgtcggct cactcaaaag cggagatgcg gttatccaca gaatcagggg ataacgccaa
     1501 aagaaacatg tgagcaaaaa acgagaaccc ggaaaaggcc acgccgctgg cgtttttcca
     1561 taggctccgc ccccctgacg agcatcacaa aaaccgacgc tcaagtcaga ggtggcgaaa
     1621 cccgacagga ctataaagat accaggcgtt tccccctgga agctccctcg tgcgctctcc
     1681 tgttccgacc ctgccgctta ccggatacct gtccgccttt ctcccttcgg gaagcgtggc
     1741 gctttctcat agctcacgct gttggtatct cagttcggtg taggtcgttc gctccaagct
     1801 gggctgtgtg cacgaacccc ccgttcagcc cgaccgctgc gccttatccg gtaactgtcg
     1861 tcttgagtcc aacccggaaa gacatgcaaa agcaccactg gcagcagcca ttggtagagg
     1921 gtgtacaaga aattgctgat acggagttct tgaagtgaag gcccgactgc ggctacactg
     1981 aaaggacaga tttggtggca gcggtcttgt acgccctgtt accttgggtt agaaagcctg
     2041 agaaacttct aaccttcgaa aaacccacgc ctgagaacgt gggttttttc gtttacgccc
     2101 gtagagatta cccatcatag gggtgtaact caaggtctat ttggatagtt ttaccaagga
     2161 ataatcatgg agttccaaga attagaaaat agcgcatgct tatactggcc caaagaactt
     2221 gcagaaagag cagcatctat tagcgccata agccctctta tagagaccca agatgaattt
     2281 ttatcaatac taacaatatc aacaaataag cctacatctt gttttgatgc tgtacggtta
     2341 tgcaataaga tatcacccaa cctatttgtc aagcacctaa tggttttgtc agatattgga
     2401 ggcgaaagac ttcatcgctt ttttaaagat ttagataaaa tctatcctga cagaataatg
     2461 gagttcaata tagggaataa ctcttactct taccaattca atagcaatag agcatggaca
     2521 accaagaatt taaacgtgga aaaatcacga cttttgcaac ctgtaagtga ttttacacga
     2581 gaaatgcttg atgtttgcat gctgatcctg tggggaggta acactataaa caatacaaac
     2641 cttccaactg aaatagaaaa taactgtatt ttgggaaatt taattgggaa caaagaagca
     2701 atagaacaat ttgtaaaaga aagatatata atggttagca gacaaacagg aggtgcaacg
     2761 gcaaatgatc ttggacacat atgcgagatc tttataaaag aaaaacttta taaacttatt
     2821 gatgataata tatctctaga tggacaccat atcgatggtg taactcataa cgataaagac
     2881 cttacgactt ttgatattgt agcaaaaaac acgataacaa aaaaatgtgt tggtattgaa
     2941 ataagttttc aagttacaac aaactcaaca atagaaagaa aagcaggatt agccaaaagc
     3001 agaagagatt tactcaattc aatagggcat aaaatagcat atgtgattga tgggtctggt
     3061 aattttcagc gctcaaatgc cataaaaaca ataattaacc atagtgacat gactgttaac
     3121 ttttcagata atggtataaa ttcactagca acattcatct gcgagacatt gaaatgatta
     3181 aatttgttga ccttttttct ggcacaggtg gtattagact tggttttgag caagccatga
     3241 aagaaattgg attgtcaaca aaatgtgtaa aaagctcaga aattgacaaa aaagcatgcg
     3301 aaacatacaa acttaacttc gacgaagaat catattgtga tatacatgat gttgatatag
     3361 atgaaagctt cgatgtttta ttggcaggat ttccttgcca agcattctct tatgctggaa
     3421 aacaacttgg ttttgcagac acccgaggta cattattttt tgaagtagaa agaattataa
     3481 agaaaaacaa gcctaaattg tgtcttttgg agaatgtacg tggattaact tcacatgata
     3541 aaggaaggac attttcaaca atattaaaat cccttcacga tttagggtat catgttgaat
     3601 acagactatt aaatacaagt aattttggcg tccctcaaaa tagggttaga atatatataa
     3661 tagcctcatt aaaaaaagag gtaacgctta ctattcctaa tgatcttgga gccaaagata
     3721 cgcacaatta caaaccatcc aaaggtggtc atgattttta tacagaatca aaagtttctg
     3781 acatactaga ggatagtcca gacaagtcat atgattgcag cgattggttc aagcaacgcc
     3841 ttgaagatat ttttaaaggt gacctgaata aagttcatgg aatcaggcta attgacacaa
     3901 ggaacggcaa ctccttgcac tcttgggatc ttgggctaaa aggcgagtgc tcaaatgatg
     3961 aaatagcttt catgaattca ttaattgcaa atcgtagaaa gcatattttt ggcacacacc
     4021 aagacggcaa ggctttgtca aaagcacaaa ttgaaacatt tttcaaacat agcgaaacca
     4081 ccaacataat aaaaaatcta attaaaaagg gttaccttaa agaaaaaaac ggactataca
     4141 acccagtttg cggaaatatg tcttttgaag tattcaaatt ccttgaccca aataaagtgt
     4201 caattacact tactgcatct gatgccaata gacttggagt ctatcacaac aatagactgc
     4261 gacgccttac accaagagaa tgtgca
//
