LOCUS       NZ_CP063480             5330 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain EM06-18-14 plasmid pEM06-18-14_1, complete
            sequence.
ACCESSION   NZ_CP063480
VERSION     NZ_CP063480.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16387502
            Assembly: GCF_016942655.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5330)
  AUTHORS   Moser,A.I., Campos-Madueno,E.I. and Endimiani,A.
  TITLE     Complete genome and plasmid sequences of MDR Escherichia coli from
            local people and environmental sources in Laos
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5330)
  AUTHORS   Moser,A.I., Campos-Madueno,E.I. and Endimiani,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-OCT-2020) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.7.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 490x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 06:38:14
            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)                     :: 4,887
            CDSs (total)                      :: 4,768
            Genes (coding)                    :: 4,593
            CDSs (with protein)               :: 4,593
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 175
            CDSs (without protein)            :: 175
            Pseudo Genes (ambiguous residues) :: 0 of 175
            Pseudo Genes (frameshifted)       :: 66 of 175
            Pseudo Genes (incomplete)         :: 115 of 175
            Pseudo Genes (internal stop)      :: 40 of 175
            Pseudo Genes (multiple problems)  :: 41 of 175
            Pseudo Genes (short protein)      :: 2 of 175
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP063480.1.
            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..5330
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EM06-18-14"
                     /isolation_source="chicken meat"
                     /db_xref="taxon:562"
                     /plasmid="pEM06-18-14_1"
                     /geo_loc_name="Laos"
                     /collection_date="2018"
                     /collected_by="Institute for Infectious Diseases Bern"
     gene            <162..745
                     /locus_tag="IQS22_RS23630"
                     /old_locus_tag="IQS22_23645"
                     /pseudo=""
     CDS             <162..745
                     /locus_tag="IQS22_RS23630"
                     /old_locus_tag="IQS22_23645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /note="frameshifted; internal stop; incomplete; partial in
                     the middle of a contig; missing N-terminus; Derived by
                     automated computational analysis using gene prediction
                     method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            742..2421
                     /locus_tag="IQS22_RS23635"
                     /old_locus_tag="IQS22_23650"
     CDS             742..2421
                     /locus_tag="IQS22_RS23635"
                     /old_locus_tag="IQS22_23650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000598747.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="WP_053888063.1"
                     /translation="MIKVQLPTREHHHHELNLNYGDVVFFIGQNGSGKSSLLNNLFQKI
                     GSQSSVYVLAHRKNTFSSDIIDFSNSEYKNAQGWIFNEIKGSQCRYRVNYDSQMVAIPI
                     VKLKNKEIARALSFVDSFKSNNNQPAELIKSEVDVLNMVFADAKLSIEFFLDDEANVMA
                     RNIKGEHPDVYPISMLSDGEKSALIIASEIICADENTTIFLDEPERHMHRSIVSPLLSS
                     LMKYRRDCVFFVATHELSLPAFFDNVKVVNVKNCYFSEQREPMCWDFNVVEDYDELFNG
                     VDEQTKIDILGARDKVLFVEGVTSSLDRDLYSAIFPMVSVVSKQKCDLVELAVKGLRLN
                     DEIHRVSAFGIIDNDNKVQAKVDNLKKDFIFSLDVHSIESIYYHPRMIKFVIDFVKEAN
                     GIDNVDTLFMEIHDFAIDAINEKRDHLCCRAVEKTIRADLMSSIPKQQDIKNRIKFNKE
                     IDIECYVNKEIAAFDAMIAERNLEALVSRYPIRETNLLAHVAKKCGFADRSRYELNVIR
                     TIKSNADARAFVLSLLGGLDEAILGCSDTENSPADTNTVFAM"
                     /name="AAA family ATPase"
     gene            complement(2658..2852)
                     /locus_tag="IQS22_RS23640"
                     /old_locus_tag="IQS22_23655"
     CDS             complement(2658..2852)
                     /locus_tag="IQS22_RS23640"
                     /old_locus_tag="IQS22_23655"
                     /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_053888061.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVHFEAENETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3778..4245
                     /locus_tag="IQS22_RS23645"
                     /old_locus_tag="IQS22_23660"
     CDS             3778..4245
                     /locus_tag="IQS22_RS23645"
                     /old_locus_tag="IQS22_23660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_154496434.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHIGPNRGFGVRHIWAEHEQELVKLGYATVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSIGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     Typing          3092..3348
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.208"
                     /coverage="89.0"
                     /evalue="3.43e-107"
     Typing          complement(4764..5327)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.965"
                     /coverage="89.0"
                     /evalue="7.01e-162"
ORIGIN
        1 cgtaggcatt tgcattttct ccttacgcat ctgtgcggca tttcacaccg tccatggcgc
       61 acttttcata caatccgcac tgctaccgca tcgttaagtc agtactcaca gcgtcccctc
      121 tgcgaggtgc cttctgtgac tggttcaggg ggctcgccgc ccccctcaaa tatgctgccg
      181 ccattgagaa tgcgctgcgt aaaaaattgg gcgccgatgc ggggtattca gggctaattt
      241 gcaagaatcc gaaccacctg cactggcaga tcaccgtttg gcagcctgag ctctaggccc
      301 tcgactggtt agccgactac ctcgaccttg gcgcagctaa tgaccgcgaa atcctaccgg
      361 actacggttt aggccgtaac tgcaccctct tcgataaaac ccgcaagtgg gcttaccgtg
      421 ctatccgcca aggctggccg cagtatgacc aatggctaca agcctgcttt gaacgcgcta
      481 aagcctacaa cctgcagttc tccgcacctt tagacgaaaa cgaagtcatg ggtattgcca
      541 aaagtgtagc taagtggact aataaaaatt ttacagagtc atcatttgat gattttataa
      601 aaaagcccca ttcggcagac atccaatctc tacgtgggaa aaaagtaaag gaggaggtag
      661 gacttcatta aactctccat ggattaattt aggaattagt cgttcaacgt attttagatt
      721 aaaagctaaa gagaaaggaa aatgataaaa gttcagttgc ctactagaga acatcatcat
      781 catgagctta atcttaatta tggcgatgtc gtttttttta ttggtcagaa tggtagtggt
      841 aaatccagcc tattaaataa tctttttcaa aaaataggat ctcaatcatc agtatatgtt
      901 ttagcgcata gaaaaaatac attcagcagc gacattattg atttcagtaa tagtgagtat
      961 aaaaatgcgc agggatggat ttttaatgaa attaaaggca gtcaatgtag atacagagtt
     1021 aattatgact cacagatggt tgccatacct atagtaaaat taaaaaacaa agagatagcc
     1081 agggctttaa gtttcgtaga ttcatttaaa tcaaataaca atcagccggc agagttaata
     1141 aagtcagagg ttgatgttct aaacatggtt tttgctgatg ctaaattatc tattgagttc
     1201 tttctagatg atgaagccaa cgttatggca cggaatatta aaggtgaaca tcctgatgtt
     1261 tatcctatat caatgctttc tgacggtgaa aaaagtgcac taattattgc cagtgagatt
     1321 atttgcgctg atgaaaacac aactattttc ttagatgagc ctgagcgaca tatgcacaga
     1381 agcattgtgt ctccgctgct ttcatcttta atgaaatatc gtagagattg tgtttttttt
     1441 gttgccaccc acgagttaag cttgcctgcg ttttttgata acgtgaaagt ggttaacgtt
     1501 aaaaactgct atttttccga acaaagagaa ccgatgtgct gggatttcaa tgttgttgag
     1561 gattatgatg aattattcaa tggtgttgat gaacaaacta aaatagatat acttggcgct
     1621 agggataagg ttctatttgt tgaaggtgtt acgtctagcc ttgaccgtga tttatattcg
     1681 gccatatttc ctatggtttc agttgtatct aaacaaaaat gtgatttggt tgaattggcg
     1741 gtaaaaggct tgagactaaa tgacgaaatt catcgagtat cggcgtttgg tatcattgat
     1801 aatgataaca aggtgcaggc gaaggtcgat aacttaaaga aagacttcat ttttagcctc
     1861 gacgttcatt ctattgagtc gatttattat catcctagaa tgattaagtt tgtcattgac
     1921 tttgtaaaag aggctaatgg gatagataat gttgatacct tatttatgga aattcatgac
     1981 ttcgctattg atgccataaa tgaaaagcgc gatcacttat gctgccgtgc agttgaaaaa
     2041 acaataaggg cagacttaat gtcgtccata ccaaaacagc aagatattaa aaaccgcatt
     2101 aagtttaata aagaaattga tattgaatgt tatgttaata aagaaattgc tgcatttgat
     2161 gcaatgatcg cggaacgaaa tttggaggcg ttagtctcac gctaccctat ccgagaaaca
     2221 aatttgttgg cacatgtagc taaaaaatgt ggttttgccg atcgctctag atatgagtta
     2281 aacgtgattc gtacgatcaa gagtaatgct gacgctagag catttgtttt atccctcctc
     2341 ggagggttag atgaagctat tttgggatgt tcagatacgg aaaatagccc agctgatacc
     2401 aatacagttt ttgctatgtg agactaaaca acctatatca gataacagcc ctgcttttgc
     2461 ggggcttttt gtttgtgcgt gacttgaccg cgatgtacga tagttgctgt attaagtcag
     2521 tatacactcc gctatcgcta cgtgactggg tcagggctgc gccccgacac ccgttaaaac
     2581 ccgctgacgc gccctgacgg gcttgtctgc tgacgaaaat gctcacgggc aagccgtgac
     2641 cgacttcgtc agcttcgtta tgttcctgtt tcattttcgg cctcaaagtg aacctggatg
     2701 ctgttctgga gttcttctgc gagttcgtgc agtcgttcac acatggccgc ctgttcgtcg
     2761 gcatccagag catccagttt ttcaagcagt gttaggctct ggcttttgat aaatcgcgcc
     2821 atattcagcg cagtttgttg ctgtttgttc accttacgcg ttctctgtcg gtgtcggttg
     2881 gtccctgact aggtggtaat tgtaagaggt tgcatgcgac ggtattacaa ttgcatatcc
     2941 tgtcctgttt cttcaggcag tattatggcc ggataaataa tacctgtgca caacagccgc
     3001 ggttgcataa aatctcgctc tgcggcaagt gttttttaat caaacattcc gttgatactc
     3061 cggaaaaaca cgagtctgtt ctcatgcctg aaatgcccac accccacgca aaaacaagtt
     3121 tttgctgatt tttcttttat aaatagagag ttatgacaaa ttagttgctc ttactctctt
     3181 tgtgatattt aaaaaagcgg tgtcggcgcg gctacaacac cgcgccgaca ccgctttgta
     3241 ggggtggtac tgactatttt cataaaaaac atcattttat attaggggtg ctgctagcgg
     3301 cgcggtgtgt ttttttacag gatgcccctg gtggcgctgc taggggtgtc tgttcagata
     3361 tgtagcaatg agtcagggat tcacgaactg aaaatgtccg aaaatgtgtc tcatgggcac
     3421 cgtatgcgcc caaaccgttc actattcact ttcatgaata gctatgcagc gagctgaaaa
     3481 cgatcctgac gcattttttc ggtttgcctt ggggaaaaca tctctttttg cggtatttgc
     3541 gtcagaatcg cgttcagcgc gtttctgcgg tgcgggcaac ggatgttatg gtaaatctag
     3601 ctgctagggc gattcacacg ccatattttc aggtgtgata tccttatgca ccaaggatga
     3661 aaggacaaaa aataatccat aaggattctt tttatcgtct ctgctttttt cttgggctcc
     3721 ttccgcttgt ttcctctctg gtaccatatg cggactctac tcaataagga tcgttttgtg
     3781 cctgctccaa acaattacgg tgtggctggt tcacctaaca gcgctatagc tcatcctgat
     3841 gggcttgatt gctatggccg tgtccctgaa attaattcta aaggtgatgt tattcctgct
     3901 ggcgacatct tcttgcgtgt tggtaggcat attggcccta accggggatt tggtgttcgc
     3961 catatctggg ctgagcacga gcaggaactg gttaagctgg gatatgcgac cgttaatgat
     4021 gtggctcgtt tcgttcggga tattattcgt cgtggcgtac caatatattg cgagttcaac
     4081 agtacaagcg gtaaacatcg gccagcagtg ctaaagtcgt cgataggcat cgtaattctt
     4141 gagcccagag aagcgcctga aactgagtct ggttggatct atgtcgttgt gactgcgtac
     4201 acacgaagga cggcgcacgg tactttggtt ggtcatattg aataaaaaaa tagggcgcta
     4261 aaaagcgccc tttatgaatt cgttggtagt cgcagcattt ccttagcaca tagggttcag
     4321 aaaccgacgc ttgtcgtaac tacccggcag atgaccagcc atctgactgc ccggcacaga
     4381 aggcctatta ctggttgatg ccccctgcga atgctcttgc agtacaataa tcataaacat
     4441 cgtgatgtag atttgcaacc aacattttgg ttgcaaccta tatactaatt tttctcgata
     4501 acgccggaat ccattgctgt gtctggcttt cttgaagctc ctgactatag ataccctata
     4561 tcctaacagt tattctgctg tggatatcag aaatgaacac ttgagatcat cagtggctcg
     4621 tcgtagtctc ttgctcagaa acgaaaaaac caccctggca ggtggttttt tcgaaggtta
     4681 gttaatcctg gcagattctc taaccgtggt aacagtcttg tgcgagacat gtcaccaaat
     4741 actgtccttt cagtgtagcc tcagttaggc cgccacttca agaactctcg ttacatctct
     4801 cgcacatcct gcttaccaat ggccgttgcc aatggcgatt agtcgtgtct atccgggttg
     4861 gactcaagac gatagttacc ggacaaggcg cagcggtcgg actgaacggg gggttcgtgc
     4921 atacagtcca gcttggagcg aactgcctac ccggaactga gtgtcaggcg tggaatgaga
     4981 taaacgcggc cataacagcg gaatgacacc ggtaaaccga aaggcaggaa caggagagcg
     5041 cacgagggag ccaccagggg gaaacgcctg gtatctttaa gtcctgtcgg gtttcgccac
     5101 cactgatttg agcgtcagat tctgtgatgc ttgtcagggg ggcggagcct atggaaaaac
     5161 gccagcggcg cggccttttg ccctggcttt gcctttttgc tcacatgttc tttccggcct
     5221 tatcccctga ttctgtggat aaccgtatta ccgtctctga gtgagctgat accgctcgcc
     5281 gcagccgaac gaccgagcgc agcgagttag tgagcgagga agcggaagag
//
