LOCUS       NZ_CP069462             3360 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1249 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP069462
VERSION     NZ_CP069462.1
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 3360)
  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  JOURNAL   Unpublished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 3360)
  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
            CP069462.1.
            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..3360
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1249"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1249"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(2920..3360,1..120)
                     /locus_tag="I6J79_RS25815"
     CDS             join(2920..3360,1..120)
                     /locus_tag="I6J79_RS25815"
                     /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="MbeB family mobilization protein"
                     /protein_id="WP_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            127..360
                     /locus_tag="I6J79_RS25250"
                     /old_locus_tag="I6J79_25250"
     CDS             127..360
                     /locus_tag="I6J79_RS25250"
                     /old_locus_tag="I6J79_25250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1664..1855)
                     /locus_tag="I6J79_RS25255"
                     /old_locus_tag="I6J79_25255"
     CDS             complement(1664..1855)
                     /locus_tag="I6J79_RS25255"
                     /old_locus_tag="I6J79_25255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1904..2242
                     /locus_tag="I6J79_RS25260"
                     /old_locus_tag="I6J79_25260"
     CDS             1904..2242
                     /locus_tag="I6J79_RS25260"
                     /old_locus_tag="I6J79_25260"
                     /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="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_251302571.1"
                     /translation="MKREKMLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTG
                     KLPTLSPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVR
                     EQGVRDDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          1500..1583
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.059"
                     /coverage="95.0"
                     /evalue="8.83e-18"
     Typing          4..443
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="83.553"
                     /coverage="99.0"
                     /evalue="6.69e-55"
     Typing          2233..3359
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.543"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tggggggtga cgttcgtcaa tggcgagaac gggaaatttc tggtgttgcc ggacggggtg
       61 aaaggggaaa acacctggac ggtgggcgac aagaacgccg tgaggctggt cagggagtaa
      121 acgagtatga cggaactgga agggcatttg ctgaacgcct tagagcattt gcaacaggac
      181 tatatgcggc ggctgaacga gtgggagagc gccttcgcgg aattgcagaa gatgcacgag
      241 gttacgcaac ggaacaacgc gatactgaac gagcgcgtcg tgatattgag tcagcaggtg
      301 cagagattag ccgggcaagt ggatcgcttg agtcggttat ttatcgcgaa caacagctaa
      361 gggatgaaca ggagcgtgcc cggtacagac atgaggtaca ggaacgcgcg gcacgggttc
      421 ggagtgggcc atcaatggag atgtgacgaa atcttgccat tttgaccagt tcgacggctg
      481 gggcgagcga aacaaatcgt gtgccgtatt tgtgcatagc tatgcaacat cctgaaaacg
      541 catttcacgc gtttttgggg attcagccag gggaaaacat ggttttttta ctttttgagc
      601 gtaaagacgt gaaaaatctc gttattgcac ttgcgatctt tcgtcggcgg gagtagaacg
      661 aaaacagctc gccaggaagg cgagctgttt cgggttcatt gaggtctctg acctcctcaa
      721 tgttcctgtg gaaactgttg agatccacaa cagaaaccag ttcattcagt ttgcatgagc
      781 cttctgtatt cttcaagaat ttttcaacag cacagtctcc caggaacccc gaaaaaaacc
      841 tgtttttgca gatacttgcg tatttgcgag aatcgtttgc ggttggggga gctgtgacga
      901 cggcgaccgc acgcgtgaga gttccgctac cggcgcagag agtttcatcg acagcggaca
      961 cctgatgagt tgccacaaaa accgtatgta gcgcggctag attggttgag ttagaccttg
     1021 gcggcagttc ccggtatgtg gtggcgtgac gggtgagatg gtgcggcgaa gacgcatacg
     1081 tcacgcaggc gcgggttctt ccactgacgc gccccgtgat cgatggcctt ggctccgtcc
     1141 ggcatatcga gagcggcaaa ctacccgtcc cttcactggg aggggtgagt tgttgccgtt
     1201 ccctccaacc tttcaccatc cggcatatcg cacgatccca tgtgcaccgc aactcctgat
     1261 aactccagtg caaaaaaaaa aaacggatct gcatcacaac gagagtgatc ccaccgctcg
     1321 ccgcagcccc agcgaccgaa cgtagtgagc gagtgggcga ggaagcggaa gagtcacaga
     1381 tgcaagcatt gtgcacttac gcgcctgtga cagtgtccgc gtgtgtgctg tttatcgggt
     1441 gcgctgtttt tacatctgtg cggcttttta ctcctgacat ggtgcacttc ccatccactc
     1501 tgcaccgatg caaaatgaga taagccagta tacacatcgc tatcgctctg tgaactgggt
     1561 cagggctgcg ccccgacacc cgcactgacg cgccctggcg ggcttgtctg ctcccggcat
     1621 ccgctcacag gcaagctgtg aacgtctccg ggagctgcat gtttcagttg ctttcaccgt
     1681 catcgccgaa gcgtgcgagg caactgcggt agagttcgtc ggcgtggtcg tgaagtgatt
     1741 cgcagatgtc tgcctgttcg tccgcgtcca gatcgttgag tttttccagc agggttagcg
     1801 tctggcttct gataaagcga gccatgttaa gggctgtttt ttcctgtttg gtcatggtct
     1861 taaggctcct tgtatggggg atttgttagg gggaatgata ccgatgaaac gcgagaagat
     1921 gctcacgata cgggttaccg atgaggagca cgcccggtta ctggaacgct gcgagggtaa
     1981 acgactggcg gaatggatgc ggcgggtctg tctgggggag ccggttgcac gcacaggaaa
     2041 actgccgaca ctatcgccgc cattgctgcg gcatctggct gccatcggga acaacctgaa
     2101 ccagacagcc cggaaggtga acagcggtca gtggtcttcg attgaccggg ttcatgtggt
     2161 ggccgcactg atggccatcg agggtgaatt gcgccagttg cggcaggctg tcagggaaca
     2221 gggggtacgg gatgatagtt aaatttcatg ccagggggaa aggcggtgga agtggcccgg
     2281 tcgattacct gctggggcgg gagcgtaacc gcgaaggcgc aacggtgctc cggggtaacc
     2341 cggaagaagt gcgagaactc attgattcca cgccattttc gaagaaatac acttcaggcg
     2401 ttctgtcgtt cgcggagaag gagttaccgc cgggtgaacg cgaaagagtg atgacgagct
     2461 ttgagcgtgt tcttatgccc ggtctcgaaa aagaccagta cagcattctc tgggtggaac
     2521 accaggataa ggggcggctc gaactgaatt ttgtcatccc gaacatggag ctacagagcg
     2581 gtaagcgcct ccagccgtac tacgaccgcg cggacaggcc gaggataaat gcctggcaga
     2641 cgctggttaa tcatcattac gggctgcgtg acccgaacgc accggagaac agacggacgc
     2701 ttgtcacgcc aaataatctg ccaaaagcga aacaggaggc cgcagaagcg attacacggg
     2761 gtcttgaggc tctttaccat gccggagcaa taaaaacgcg tcaggatgtc acagaggcgc
     2821 ttacagcggc aggttttgag gtggtgagga caaccaaaag cagcatcagt attgccgacc
     2881 cggagggggg gcggaatctc aggctaaagg gggcgctgta tgagcaatct tttacaaatg
     2941 ggaacagact tcgagaagaa actgaaagag cgagccgctt ctaccgagaa catgctgaac
     3001 agcgagttca ggaagctcga agagtctgta gacaaggcat tgagcttaaa caggcagaaa
     3061 atcagagacg ctatcagcga acatacaaca tccgtgaaaa agcaactgga tacgctgagc
     3121 accaccgtga gcatgcagtt cagcaccaca gaggccgaac tgtcccggca gcagaaaaaa
     3181 ctgctctggc gggtgatcaa agggcggata ctgtttccgg cgctgaccgc gctcagcgtc
     3241 acgggcggca ttttcctggg gtgctggggg ctgatggagt ggcaggaaag caagattgcg
     3301 aaaaatatcc tgactatcag agagcaggaa aacacgctgg cgaaactcga ggcaaaaacc
//
