LOCUS       NZ_CP069562             4087 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1259 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP069562
VERSION     NZ_CP069562.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357401
            Assembly: GCF_016889905.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4087)
  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  JOURNAL   Unpublished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 4087)
  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                   :: 699.36x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:27:34
            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)                     :: 5,147
            CDSs (total)                      :: 5,033
            Genes (coding)                    :: 4,791
            CDSs (with protein)               :: 4,791
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 242
            CDSs (without protein)            :: 242
            Pseudo Genes (ambiguous residues) :: 0 of 242
            Pseudo Genes (frameshifted)       :: 77 of 242
            Pseudo Genes (incomplete)         :: 174 of 242
            Pseudo Genes (internal stop)      :: 56 of 242
            Pseudo Genes (multiple problems)  :: 60 of 242
            Pseudo Genes (short protein)      :: 4 of 242
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069562.1.
            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..4087
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1259"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1259"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(3807..4087,1..1879)
                     /gene="mobQ"
                     /locus_tag="I6J89_RS25455"
                     /old_locus_tag="I6J89_25465"
     CDS             join(3807..4087,1..1879)
                     /gene="mobQ"
                     /locus_tag="I6J89_RS25455"
                     /old_locus_tag="I6J89_25465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_023142279.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTEYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLATL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2135..2842)
                     /locus_tag="I6J89_RS25460"
                     /old_locus_tag="I6J89_25470"
     CDS             complement(2135..2842)
                     /locus_tag="I6J89_RS25460"
                     /old_locus_tag="I6J89_25470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3374..3628)
                     /gene="mobC"
                     /locus_tag="I6J89_RS25465"
                     /old_locus_tag="I6J89_25475"
     CDS             complement(3374..3628)
                     /gene="mobC"
                     /locus_tag="I6J89_RS25465"
                     /old_locus_tag="I6J89_25475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(3630..3806)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3807..4087
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.91e-145"
     Typing          complement(2136..2842)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3..1876
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.68"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cgaactaccg caggatgccg cacgggaaac cgttctcgcc tttgtcagag aaaactttgt
       61 cagtcagggc atgattgctg atgtggcgtt ccatcacatg gataaaacaa atccccatgc
      121 gcacatcatg ctgaccacga gagctgtcgg acctgctgga ttcggtggaa aggtcaggga
      181 ctggaacgac cggacacatg ccgagacgtg gcgtgcatca tgggctgacc atgcgaacag
      241 ggcactggcg aacgccggtt atcaggaaga gatagaccat cgttcatacg agcgacaggg
      301 gcttgagaaa acgcctggta ttcacctcgg aaagtctgcc tgtgcgatgg aaacacgcgg
      361 tatcgaaaca gaacgcggcg aacagaatcg tctgattaac agacttaacc tggaaataca
      421 gatttcccgt accgaactca gaaacagcgg gctgacagag cctgcccgcc gtgtggctga
      481 ccttctgaat atcgtgcttc ctgacaacgc aacttcgtac acactacgtg acatcatcga
      541 agcgttgccg aaggacagta atgcggcatg gaaactcacc agtaatgcca tgtcgatgat
      601 ggcagatatg caggcgacgc gcagacgctg ggaagagctg aacaccgaac gaaaggaagc
      661 gatgagccat gctgccagcc tgaaaaaatc atcgccgttt tcgtccggtt tttcccgtat
      721 tcccctgatg caatgggcgg caccggaata ccgtagcgaa cagggaaaaa tccagtcgct
      781 gagccagcaa atggaaaaat tgcgacagca ttaccggaag gtggagaaac aggacattcc
      841 cgcgagtcag acggcatttg aaaaacagtg gcagcagtgg ggggcatccg gccttgcagc
      901 tctcagagtc cagttgctta aacgtgaaga ggaattgcgc cggaaggagc aggaggatac
      961 agaacgtagt cgcgcggagc gacgagcgga acagctcagg aaaaatgaca atgccgttat
     1021 ggattcaggg gtactgagcg cagtcgttac ggagtatggc gaggccccca tgcctggtaa
     1081 cggggaaatg acctgttacc ttctgcttca caaccggaac ggagaataca cgctctgggg
     1141 gaacgagctg gagaaatacc gcaccagaat ctttgagcgt gttgatttaa tgcgtgacag
     1201 gagtggttat atctgtgacc gaagcgaaat cggtcaacat ccaccactgc aacgtgttta
     1261 ttcctctgcg acctttgagc aacttctgac gcaggtttgc cagacatggc cgcaatatac
     1321 ccgcaatctc cgccagccga agacatggcc ggagtctttc tgtcttggag aagaccgcca
     1381 gccagccatg ccatcactgg cagcaaggaa ggtggatttt acgcagggac gtctgctagc
     1441 gacgctgatg ccggtaatga gttctgtcga ccgggaaacc cgccagcttc agcttttgct
     1501 ggtcatgggc gtggatgact ctctgggcgg tgttgtccgg cttaatggta cgctgtatcc
     1561 cgcgtttgcc gttccctcag ccgataacag ccagctggtc atcagtgcac tgaccgataa
     1621 ggggttacgg tatgcagggt atggtgttgc cgtaaatcac gatgcagaca gccacatatc
     1681 acctgcgccg gaacttatgg agtttcatct gaaaacccgt gaggcaccgc tttttgctgc
     1741 cgtcaacaca ccagaaaaac agccggatca tctgttccgc tcgctgggtt ttaatcgtac
     1801 ctgggacgaa tggcggcgcg aggaagatgc acgaacacac gccaccgaga ggagacatga
     1861 tcgcggttgg tcacagtgaa tgtgaacaat attttgtttt gtttaacatc gtgttatgtt
     1921 cgtcgatgtt cttcgatgtt catcgacagg gatgaatgca agaagcacac acataatgca
     1981 agcatagttt tgtttttccg cccccgaaaa atgggggttc ttttttcgct gcattagagc
     2041 gcttttgacg caatttttca cttcaatagt accttcgcac tactaacaca aaaaaaacgc
     2101 agcagggagc gttttaggtg ccttaaaatc gattctagat cgtcatcttg atctgtttgt
     2161 cttccttgaa gcgaaaatgc agggctacaa ccgtgcgccc ctttttgatc gtctcaaccg
     2221 ttacagccag gtcgcttttt ttgttcagtt cgtcaacaca gggttttatt agatccctgt
     2281 ttaacgtttt gaaatcttta tatttaccat caagcatcag tgatgattta aaatcatcga
     2341 gggcgataat acgttcccca gtactgcgga attgctggag aatttcgtat attcttatgc
     2401 tgtaacttct tgataaatta gaaatatttt taatgacgac tctggtgaat tgccccttca
     2461 actgtgtcag ataaggcatt accgcgtcag aaaaagtgat ttgtgctttc ccctctcccc
     2521 tcgcgtactg tgcccgatac tgaatccagc ggaactcctc gcgcttctcg tcgtccttga
     2581 gaatgatcga cctgtcccac aaacgatcga tcgcttcctg tagctgaacc tcggcatttt
     2641 tccgccccat atcagggaat gaatcaaaat attccgcagc tgtaatggtc attgtctttt
     2701 gcaattcagg tgaagctacg tcagtaccgg agttaagtcg gcttatgcag agcaataaga
     2761 aacgctgttc ttgtaaagtt agcttgtaac tggcctcaac cagcgcattg gacttatagg
     2821 ctatcagagg gtttgatgtc attttaacca ccaggccaaa aatgaggtga aataaaaacc
     2881 tatcaccttt agcattggtg agcaattata ttttcacccc ccattttcct gtgaatatta
     2941 ccttaaatct cctcaccttt accttaaatt acctcaccca agcaccttaa attatatcac
     3001 ctttacctta aatcatatca cctatagcgt tgtaacattt tgttttctat aaggaatttt
     3061 ggcgctaaaa caagtattaa aaacaagatc ttaaaaacaa gatctaaaaa cttaacgacg
     3121 agcctgtgga taacttggag tgctgaaaac aaaaaaccaa taaaaacaat gcgttgcaaa
     3181 aaagcagaat tgcaagttcc gaatacaccc cctccaaccc tgtggaaatc cagtattcat
     3241 gcgggttcag cgcatatcac ctcccgaaaa accgtgcgta tgtgctcaat caggcgacgg
     3301 attcacttcc gcttcctcgc ccactcgctc gctaacgctc ggtcgctggg actgcggcga
     3361 gcggacgata caatcactgt cctggcagcg cttccagctc gttaatcagc ggcagtatgc
     3421 gcgtcacatc agcctgtcgt gtcacctctg ccttcaggaa ctggagtaac caggcacgca
     3481 actgcacctc ctccggcttt ctgacctttg ccagcaatgc tgcacccaca atgaccttct
     3541 gcgctgtgtc cagactcctg ctcttcgcct tcaggcgctg taatctggcc tcagcatcag
     3601 caatcttctg ttcgagtgtt ctgctcatga tgtaactccg tgcgcgatga aaaatcgcat
     3661 tttagcgcgt cactggtagt ttaaaaactg agctggcata atgcacggaa aatcacgaag
     3721 tgcgcactta tacaatctcc actccgtttc gattgtgtgc gccctgcggg gctgaaagaa
     3781 aaccacaaaa aggcattacg gcagaaatgg cgatttatca tctcagcatg aaaatcatct
     3841 ccagaaacag cggctacagc gccgttgctt ctgctgccta tcgttccggt tcactgatgc
     3901 ttgatgagcg taccggactg actcacgact acacccgcaa aagcggtgtg gctgaagctg
     3961 tgattctgac tcccgcgaca gcccctgcct ggtgtacgaa ccgtgccgaa ctctggaatg
     4021 ccgttgagaa ggccgaacgc cggaagaact cacaacttgc gcgggaaatt gaactcgcca
     4081 tcccccg
//
