LOCUS       NZ_CP069545             3347 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1248 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP069545
VERSION     NZ_CP069545.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357390
            Assembly: GCF_016889845.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3347)
  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  JOURNAL   Unpublished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 3347)
  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                   :: 947.14x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:14:06
            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)                     :: 4,982
            CDSs (total)                      :: 4,860
            Genes (coding)                    :: 4,620
            CDSs (with protein)               :: 4,620
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 240
            CDSs (without protein)            :: 240
            Pseudo Genes (ambiguous residues) :: 0 of 240
            Pseudo Genes (frameshifted)       :: 68 of 240
            Pseudo Genes (incomplete)         :: 167 of 240
            Pseudo Genes (internal stop)      :: 52 of 240
            Pseudo Genes (multiple problems)  :: 43 of 240
            Pseudo Genes (short protein)      :: 4 of 240
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069545.1.
            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..3347
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1248"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1248"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(2824..3347,1..187))
                     /locus_tag="I6J78_RS24435"
                     /old_locus_tag="I6J78_24440"
     CDS             complement(join(2824..3347,1..187))
                     /locus_tag="I6J78_RS24435"
                     /old_locus_tag="I6J78_24440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001556733.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_053272217.1"
                     /translation="MLYWKKMPSLWIGNRLTEFNSLETSHAIAAIKIYITFCLFGKEED
                     DGVRTVKLTFTEISEIASISRSLVNEGLKLLDNKKLIKYLSPASKRKKIYTVDVDGCIH
                     DGWCKLPMAGIVSEDRTISAFQSMHNRYHFELVALQLYLYLLYARDNFQEHVLARKQTI
                     CEKLACRNVDLNKAITYLIHIGLLKGIKQKAVESYPIELFHDSFYFYVKTGASNALTFK
                     KQPLVNPPEKEIPY"
                     /name="hypothetical protein"
     gene            complement(533..1054)
                     /locus_tag="I6J78_RS24440"
                     /old_locus_tag="I6J78_24445"
     CDS             complement(533..1054)
                     /locus_tag="I6J78_RS24440"
                     /old_locus_tag="I6J78_24445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010657475.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_099368844.1"
                     /translation="MDNSQIGTPESHEQDNYNFVQVSRAYLKEWRALTRKSPIASEILM
                     YLIENMGRTTNAVVCSYTTLMEITGVSRASVARAVKILKEDRWMQAVKIGNATAYCVNA
                     KAFWQAGRNQKKYAIFQATVIASSSEQESDFLEKSQQDLRYIPFVDLKDRPIVGTDELP
                     PPDQTDLDLD"
                     /name="replication/maintenance protein RepL"
     gene            1648..2616
                     /gene="mobV"
                     /locus_tag="I6J78_RS24445"
                     /old_locus_tag="I6J78_24450"
     CDS             1648..2616
                     /gene="mobV"
                     /locus_tag="I6J78_RS24445"
                     /old_locus_tag="I6J78_24450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000852935.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_053272216.1"
                     /translation="MANYAIMRCKKLTGMGSVASALQHCYRERETPNADADRTPENHCS
                     VSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEATPRQQAEFFARSEQWLE
                     NKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMRDDQSTYAESVK
                     KLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPRVLRKGIFTKDVEDQAA
                     IAKRLSQAVNDGFAGTIAMASQSAQNAKRARDLQKTMDSQQKRLQSVTEPFKGLSREQM
                     THILTMAQTFQQQNHDREKQRQLEREQERQQRQKTDRGISR"
                     /name="mobV"
     gene            2613..2807
                     /locus_tag="I6J78_RS24450"
                     /old_locus_tag="I6J78_24455"
     CDS             2613..2807
                     /locus_tag="I6J78_RS24450"
                     /old_locus_tag="I6J78_24455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001558245.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antitoxin VbhA family protein"
                     /protein_id="WP_021567768.1"
                     /translation="MSEKQRREGFRKAEASLRLEGMDPSGVPRYECLKTRIISGETSYE
                     QGRKEILDYYLRINHKGEE"
                     /name="antitoxin VbhA family protein"
     Typing          1640..2511
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.189"
                     /coverage="86.0"
                     /evalue="0.0"
ORIGIN
        1 aagctatttc gcttatttct gtaaacgtaa gttttacggt tcgcactcca tcatcctctt
       61 cttttccaaa gagacaaaaa gttatatata tctttatggc ggcaatggca tgtgaagtct
      121 ctaaactatt aaactctgtc agtctattac cgatccagag tgatggcatt tttttccaat
      181 ataacattag tgattccttt atgcggaaat gaaagtgaaa taaatcataa ttaacacaca
      241 aatggccaat gcaagactag taagtgaccc tgccactttt cccagccttt cagcaagctc
      301 tacaaatcgc tctaagtcac ccattttgac ctctgctcct gtttaccgat ataccgatta
      361 tcccagtaat ccgcgtatct gtatctacag gagcaaaagt ctatctagaa aggtatggga
      421 aaaaattaat atgaattttt ataattaaat caaaaagtta acctcaaaaa atggttatca
      481 aatgaacttc aatatggttc acggtgaacc atatttgaag gttttcagag gctcagtcga
      541 gatctagatc tgtttgatcc ggaggcggga gttcatcggt gccaacaata gggcggtctt
      601 tgagatcgac aaaaggaata tatcgaagat cttgctgtga tttttctaag aaatcagact
      661 cttgctctga ggaggaggca atcacggtag cttggaagat tgcgtatttt ttttgatttc
      721 tacctgcctg ccaaaatgct ttggcattaa cacaatatgc tgtggcatta cctattttta
      781 ctgcctgcat ccatcgatct tccttcagga ttttaaccgc ccttgctact gatgctctag
      841 agaccccggt tatctccatc aaagtcgtat agctgcaaac aacagcatta gttgtcctgc
      901 ccatattctc aatcaagtac ataaggattt cagaggcaat agggcttttc cttgtcagcg
      961 cacgccattc cttgagatac gcgcggctaa cctggacgaa attatagtta tcctgctcat
     1021 gagactctgg agtgccaatc tgtgaattat ccattgctct atagaccatt tcaatatccc
     1081 atttgatacc ggttgtatca ttagagatgc aacaggtcaa cttgagtctc atagctagtg
     1141 agactcataa gtctcatggc tggtgagact cccccttttt ttaacccaat ataatcagcg
     1201 atttactgaa agctcctttt ctatatctat taagtccgtg catacgtagc ccaatgtacg
     1261 cctagtggac attccgcttc ctcgttcagg ctgttcgttc ctcgctgcgc tgcggtacgc
     1321 ctcagcctga cctgcggcga gcggcacgtg ctctttcaaa gacgactttg ttgcctgaca
     1381 ttcgtcaagg gcgagcgtag cgagtgccat ttacccttga cgactcaccg gataaaacag
     1441 gcttggcagt ggtggggggt ggcgcggagc gacgccttcc acctgccaga ccgctgttga
     1501 acttgacctt taggcagctt gctgcccgaa cgattttgca aagcaaagtc tagtgagtac
     1561 actatcatcc tgatagtggc ccgccggagg catcgcaatg cgatcccccg tctggccgga
     1621 tggacgccgg aacgaggggg gggaagcatg gcgaactacg cgataatgcg ctgtaaaaag
     1681 ctgacgggaa tgggcagtgt ggccagcgcg ttacagcact gctacaggga gagagaaacg
     1741 ccgaatgctg atgctgaccg gacaccagaa aaccactgct ctgtgtctca gtcggcagat
     1801 gaggcgatgg gaaagctgcg ggagctgttg ccggaaaaac gccgtaaaga tgcggtactg
     1861 gctgttgaat acgttatgac agcaagccct gagtggtgga acgaggccac accgcggcag
     1921 caggcggagt ttttcgcccg ttctgagcaa tggctggaga acaaatacgg gaaagatcgc
     1981 gttgtggcgg cggtggttca cagggacgag gccaccccgc acctgtctgc gttcgtggtg
     2041 ccattgacgc aggatgggcg gctgtccgcg aaagagttta ttggcgggcg gtcaaagatg
     2101 cgtgacgatc agagcaccta cgctgaatcg gtaaaaaaac tgggtcttga gcgcggcatc
     2161 gagggaagcc gtgccacgca tcagacagtt cagcactact acgaatcgat aaaccgtggc
     2221 acccgtagcc aggtatcgat ctcaccggag gcgctggagc cgcgtgtact gcggaagggt
     2281 attttcacca aagacgtgga agatcaggca gccatagcca aacgtttaag ccaggcagtg
     2341 aacgatggct ttgcaggaac catcgctatg gcctctcaga gcgcccagaa tgccaaaaga
     2401 gcgcgcgatc tacagaagac tatggattcg cagcaaaaac gcctacagag cgttacagag
     2461 ccttttaaag gactttcccg ggagcagatg acccatattc tgacgatggc gcagacgttc
     2521 cagcaacaga atcacgatcg tgaaaaacag cgccagcttg aacgggagca ggaacgccag
     2581 caacgtcaga aaactgacag aggtattagc cgatgagtga aaagcagcgc cgtgaagggt
     2641 ttcgaaaagc ggaagcatca ctaagacttg agggaatgga tcctagtgga gtacctcgtt
     2701 atgaatgttt gaaaacgagg attatctctg gcgaaacaag ttatgaacaa gggcgtaaag
     2761 aaatattgga ttactacctt agaataaatc ataagggcga ggagtaattc gccctcaggt
     2821 atgtcagtac ggaatttctt tttctggagg gttaacaaga ggttgctttt tgaatgtaag
     2881 cgcattgctt gctcctgttt ttacataaaa ataaaatgaa tcatgaaaaa gttctatggg
     2941 ataagactcc actgcctttt gtttaattcc ttttaaaaga cctatgtgta ttaaatatgt
     3001 tattgcttta tttaaatcta cattgcgaca agcaagcttt tcgcaaatag tttgttttct
     3061 agctaacaca tgctcctgga agttatctct ggcatataga aggtataaat atagctgaag
     3121 cgctacaagc tcaaaatggt atctattatg cattgactgg aaggcgctga ttgtcctgtc
     3181 ttcgctaacg atgcctgcca taggcagctt acaccatccg tcatgaatgc acccatcaac
     3241 atccactgta tagattttct ttctttttga cgcgggcgat aggtatttaa ttagtttttt
     3301 attatcgagc aatttgagac cttcatttac caaagatcgg ctgatag
//
