LOCUS       NZ_CP069937             3171 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1302 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP069937
VERSION     NZ_CP069937.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357444
            Assembly: GCF_016903435.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3171)
  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  JOURNAL   Unpublished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 3171)
  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                   :: 1342.09x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:02:54
            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)                     :: 5,040
            CDSs (total)                      :: 4,924
            Genes (coding)                    :: 4,706
            CDSs (with protein)               :: 4,706
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 218
            CDSs (without protein)            :: 218
            Pseudo Genes (ambiguous residues) :: 0 of 218
            Pseudo Genes (frameshifted)       :: 80 of 218
            Pseudo Genes (incomplete)         :: 142 of 218
            Pseudo Genes (internal stop)      :: 43 of 218
            Pseudo Genes (multiple problems)  :: 45 of 218
            Pseudo Genes (short protein)      :: 4 of 218
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069937.1.
            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..3171
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1302"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1302"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(155..478)
                     /gene="mobA"
                     /locus_tag="I6K32_RS24850"
                     /old_locus_tag="I6K32_24850"
     CDS             complement(155..478)
                     /gene="mobA"
                     /locus_tag="I6K32_RS24850"
                     /old_locus_tag="I6K32_24850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            762..956
                     /locus_tag="I6K32_RS24855"
                     /old_locus_tag="I6K32_24855"
     CDS             762..956
                     /locus_tag="I6K32_RS24855"
                     /old_locus_tag="I6K32_24855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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_001041620.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1789..2217)
                     /locus_tag="I6K32_RS24860"
                     /old_locus_tag="I6K32_24860"
     CDS             complement(1789..2217)
                     /locus_tag="I6K32_RS24860"
                     /old_locus_tag="I6K32_24860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(2181..2351)
                     /locus_tag="I6K32_RS24865"
                     /old_locus_tag="I6K32_24865"
     CDS             complement(2181..2351)
                     /locus_tag="I6K32_RS24865"
                     /old_locus_tag="I6K32_24865"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            2509..2937
                     /locus_tag="I6K32_RS24870"
                     /old_locus_tag="I6K32_24870"
     CDS             2509..2937
                     /locus_tag="I6K32_RS24870"
                     /old_locus_tag="I6K32_24870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /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_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(488..727)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          986..1514
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.393"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(159..478)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="2.23e-62"
ORIGIN
        1 cgcaaaaaga gatgttttac cccggaaaaa caggaaggat gcgtcaggat cgttttcagc
       61 tcgctgcata gctatgcatg aaagcgaatg gtgatcactt tgggagctta cggtgttcat
      121 accgtcagtt ttcgacagtt ttctctccgg gaagctaatc tgccataagc ctggataaca
      181 gggcacggtg atactccgta atagcgatca gcacctccgc atactccctg tccccgacac
      241 gcttgccgtc gataaagagt tttttctgta acgcccccag tctcataact tctttcagta
      301 cccgatcatc agtcagtgag ttaactttct taccgagagc tgccgcccgt aaaaaaccgg
      361 aaacggtctt gccgcattca gcagcccttt ttctgatttc ctggtcttct tctgccgtca
      421 gacgaacagg gcgactgata gcccgcctgc gcgtattact tccacttcgt tttgtcataa
      481 aacatggctc cgtatctgac atgggtgtcg gggcaaagcc ctgaccaggg taattgtaat
      541 agcgtgcatg tatgcgcggt ataacaatta cacatcctgt cctgtcagca agttcgaatt
      601 accgacaaag gcacggcagt tttttggcag tgacagtatt gtcaggcaga aatacctgtc
      661 aaagcgtcag acggcagaat accggcggta aaacagtcga aaagtggtac gcgatataat
      721 cacacaacgc agatgacaga cagaacggag aaaacgaaaa gatgaacaag cagcagcaag
      781 ccgtactcaa catggcagga ttcataaaaa gccagagcct gacgctgctc gaaaagctgg
      841 acgcactcga tgctgacgaa caggctgcca tgtgtgagaa gctgcacgaa ctcgcagaag
      901 aactccagaa cagcatccag acacgctttg aagtagaaaa tagcacagag agataacgct
      961 caggacagga tgccgaacgg cacaacagag cgtaaggaga aaatgtcaca taaggcgctc
     1021 ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt cgactgcggc gagcggtgtc
     1081 ggctcactca aaagcggaga tgcggttatc cacagaatca ggggataacg ccaaaagaaa
     1141 catgtgagca aaaaacgaga acccggaaaa ggctgcgccg ttggcgtttt tccataggct
     1201 ccgcccccct gacgagcatc acaaaaatcg acgctcaagt cagaggtggc gaaacccgac
     1261 aggactataa agataccagg cgtttccccc tggaagctcc ctcgtgcgct ctcctgttcc
     1321 gaccctgccg cttaccggat acctgtccgc ctttctccct tcgggaagcg tggcgctttc
     1381 tcatagctca cgctgttggt atctcggttc ggtgtaggtc gttcgctcca agctgggctg
     1441 tgtgcacgaa ccccccgttc agcccgaccg ctgcgcctta tccggtaact atcgtcttga
     1501 gtccaacccg gtaagacacg acttaacgcc actggcaacg gccactggta agcaggatgt
     1561 gcgagagatg taacgagagt tcttgaagtg gcggcctaac tgaggctaca ctgaaaggac
     1621 agtatttggt gacatgtctc gcacaagact gttaccacgg ttagagaatc tgccaggatt
     1681 aactaacctt cgaaaaacca cctgccaggg tggttttttc gtttttacaa tagtgagatt
     1741 acgacgagac tgaatgaatc tcaagatttc atttagcctg ccgctcgatc attcaaagtt
     1801 ttgaggtagc ttcattgggt catggtatcc aagctctaaa agctttatat ggttcggtgt
     1861 cagccgctgg aaatgaataa cccagtcaga aaccttgtat ttcccatgaa acgtatcttt
     1921 aaaaaccgga tcgcctaaat gagcatgcca taatttgtta gctctagcat acttctcaat
     1981 agcttctttg ttttcgtaat gatcaggcac tttccacgat ggcgatactt tgccagtcca
     2041 agctggatat ccttttaaag gatcgccaaa gagattgtat ttttcaaaat gctcaatgaa
     2101 atcatcgatt ttatcgagtg tttttgcaga atatctggat gtgtaataaa ggttgaaggt
     2161 ctcagagaat gagacaatat tcaattgtgg attttgcgcg cctgctccgc tgcccatgct
     2221 cttctctgct cccgacttag accagatggc attgtaacag acttctcatt cgctctggaa
     2281 atcaacagag acaaggatac gccaaaaacc tcaatatctt taacaagatc atgacgttgt
     2341 tcggttttca tatcgctaac tccgtatcta attcaggcag gaaaaaatct tttcctcgtt
     2401 ttcagagtag tcttttttgg ttgcacaata atggcgccag tgtcacccta ttcatatgaa
     2461 tatatcatat aatatatact ttaaatattt tggggcttag gaaaatcaat gacttactcc
     2521 gttaagaata aatggaaagc tggcggtttg tctcttggct ggacagcagt gcctaccgta
     2581 ttgtttttta tacaaaacga gaaaaagcta acttcagtgg cctttaacac actacttaac
     2641 ctgatcgttc actggtggag tttgcaagag tggccgcatc cgtcaatgga aagtctagcc
     2701 atacgtatgg gggtttctgt acggactgtt cagagagcta tcaatgatct tgaaaaagct
     2761 aatctcttgg acaagaaacc aacatcgaag agtgatcgcc gatatggtgg tcgcaatatt
     2821 tatgatctaa caaagctagt tgactaccta gatacaatgg gtccatcagt agctgaacaa
     2881 gttaagaaac cacgccataa aaaaccggta tataccgtaa gaaaaacgac agcttaaaaa
     2941 agcacaatgg aactgagcgc gagcgatgca cgatagcaaa acgatatatt acttattgca
     3001 ttggtcttgg tagccctgct tctggctaaa ccactgtcag gagtaattgg ctttgcctgt
     3061 aatgggttca tcgcttcaca gttaaagtta tcgcatagct catatattta ccataatccc
     3121 ttaattgtac gcaccactga aacgcgctga acgcgattct gacgcagaca c
//
