LOCUS       NZ_CP135209             3223 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain Escherichia coli AZ1114 plasmid pAZ1114-5,
            complete sequence.
ACCESSION   NZ_CP135209
VERSION     NZ_CP135209.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37528247
            Assembly: GCF_032292885.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3223)
  AUTHORS   Peirano,G. and Pitout,J.
  TITLE     Genomic sequencing of MDR E. coli
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3223)
  AUTHORS   Peirano,G. and Pitout,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-SEP-2023) HMH-CDI, Hackensack-Meridian Health Center
            for Discovery and Innovation, 111 ideation way, Nutley, NJ 07110,
            USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-SEP-2023
            Assembly Method                   :: Unicycler v. v0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MiniION and Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 07:04:46
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,903
            CDSs (total)                      :: 4,785
            Genes (coding)                    :: 4,511
            CDSs (with protein)               :: 4,511
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 274
            CDSs (without protein)            :: 274
            Pseudo Genes (ambiguous residues) :: 0 of 274
            Pseudo Genes (frameshifted)       :: 95 of 274
            Pseudo Genes (incomplete)         :: 177 of 274
            Pseudo Genes (internal stop)      :: 46 of 274
            Pseudo Genes (multiple problems)  :: 41 of 274
            Pseudo Genes (short protein)      :: 4 of 274
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135209.1.
            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..3223
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Escherichia coli AZ1114"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pAZ1114-5"
                     /geo_loc_name="Mexico"
                     /collection_date="2015"
     gene            join(3143..3223,1..252)
                     /locus_tag="RRI72_RS24490"
                     /old_locus_tag="RRI72_24490"
     CDS             join(3143..3223,1..252)
                     /locus_tag="RRI72_RS24490"
                     /old_locus_tag="RRI72_24490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016234454.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EmrE family multidrug efflux SMR transporter"
                     /protein_id="WP_016807542.1"
                     /translation="MNTYIFLGGAIVAEVIGTIFMKYSEGFTRLWPSVGTAISYCAAFY
                     LLSQTLENIPTGIAYAIWSGAGIVLISLAGWLVSGQKLDWPAIAGMFLICVGVLVINIF
                     SKSSAH"
                     /name="EmrE family multidrug efflux SMR transporter"
     gene            complement(461..631)
                     /locus_tag="RRI72_RS24495"
                     /old_locus_tag="RRI72_24495"
     CDS             complement(461..631)
                     /locus_tag="RRI72_RS24495"
                     /old_locus_tag="RRI72_24495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004193911.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGNWVHGAEIV
                     ENAYRVLEVKA"
                     /name="hypothetical protein"
     gene            1270..1593
                     /locus_tag="RRI72_RS24500"
                     /old_locus_tag="RRI72_24500"
     CDS             1270..1593
                     /locus_tag="RRI72_RS24500"
                     /old_locus_tag="RRI72_24500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_004193914.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQIVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1802..>2236
                     /locus_tag="RRI72_RS24505"
                     /old_locus_tag="RRI72_24505"
                     /pseudo=""
     CDS             1802..>2236
                     /locus_tag="RRI72_RS24505"
                     /old_locus_tag="RRI72_24505"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            2271..2756
                     /locus_tag="RRI72_RS24510"
                     /old_locus_tag="RRI72_24510"
     CDS             2271..2756
                     /locus_tag="RRI72_RS24510"
                     /old_locus_tag="RRI72_24510"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_025367738.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     ENYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGQFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            2760..2975
                     /locus_tag="RRI72_RS24515"
                     /old_locus_tag="RRI72_24515"
     CDS             2760..2975
                     /locus_tag="RRI72_RS24515"
                     /old_locus_tag="RRI72_24515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_024195375.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLIQRENA
                     ALNERVTVLSRQVQSLSEQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          983..1174
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.821"
                     /coverage="89.0"
                     /evalue="7.28e-73"
     Typing          complement(520..1000)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.867"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          1584..3073
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.784"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acacgcctgt ggccgtctgt aggaactgca ataagttatt gcgctgcctt ttatctgctt
       61 tcccaaacat tggaaaatat acctaccggt attgcttacg caatttggtc tggtgcggga
      121 attgtactaa taagcctagc tggttggttg gttagcggtc aaaaacttga ttggcccgca
      181 attgcaggaa tgttccttat ttgcgttgga gttttggtta ttaatatttt ttcaaaatct
      241 tctgcgcatt aactttttac cgaagcatat tggccaaagc aaaaggattt ccttgagatc
      301 ctttctttct gcgcgtaatc tttttccctg taaacaaaaa aaccaccgct accaacggtg
      361 gttcgtttgc cggaattcag agctaccaac tctttgttcc gatggtaact ggctttcacg
      421 gagcgcagat acctaaactg tcctttcagt gtagccgcac tcaggctttc acttcaagaa
      481 ctctgtaggc attctctaca atctctgctc cgtgaaccca gttaccaatg gctaccgcca
      541 ctggcgattt gtcgtgtctt tccgggttgg actcaagttg atagttaccg gaacgggcgt
      601 ggtagtcgga ctgaacgggg ggttcgtgca tacagtccat cctggagcga actgcctacc
      661 cggaaccgag tttcaggcgt ggaatgagaa accgcggcca taacagcgga atgacaccgg
      721 taaaccgaaa ggcaggaatg cgggggagca cgagggagcc accaggggga aacgcctggt
      781 atctttaagc cgcatcgggt ttcgccaccg ctgatttgag cgtcattttc gtgatactcg
      841 tcaggggggc ggagcctatg gaaaaacggc aactccgcat ccttttcttg gcctttcctg
      901 cttcgagcgg catttgctta tcccgtaatc tgtgagctgg taacgcccgc cgcagtctca
      961 cggcaggagc gtagcgaccg agtgagcgag gaggcgtcat ttcatcacca cctgcatttt
     1021 gcacttacgc ccggcagccg catttttccc ctgtcacatg aagcactttc ataaattacc
     1081 actccgtcat aacatgttta gccagtatac actccgctag cgctacgtga ctggttcagg
     1141 gctgcgcccc gaaacccgct aaaaccactg ccgcgcctgc ggcttgtcca acaccgtgcc
     1201 gaccgggaaa agatttcccg tccgtcccgg cgttatcagg aggccggatt ggcagacaaa
     1261 cgcagcaaaa tgctcaccat gtgggtgact gaggacgagc accggcgtct gctggagcgc
     1321 tgcgagggta agcaactcgc ggcctggatg cggcagacgt gcctggacga gaagcccgca
     1381 cgcgccggca aacttccgtc gatctcgccg gcgctgcttc gtcagcttgc cggcatgggg
     1441 aacaacctta accagattgc ccgccaggtt aacgccggtg gtggaagcgg acacgaccgc
     1501 gtgcagattg tcgccgcgct gatggccatc gatgccggac tcgagcggtt gcggcatgcc
     1561 gtactggaaa agggtgctga tgatgatcgt taagtttcat cctcgggggc gcggcggcgg
     1621 cggcgggccg gtcgattatc tgctgggtaa agatcgccag cgcgacggcg ccagcgttct
     1681 gcaggggaag ccggatgaag tccgggagct tatcgacgcc tcgccctacg ccaaaaagta
     1741 cacttccggc gttctgtctt ttgccgaaca ggatttaccg cccggccagc gcgaaaagct
     1801 gatggcgagt ttcgagcggg ttctgatgcc cggactcgat aaagaccagt acagcgtgct
     1861 gtgggttgag caccgggaca aggggcggct ggagctgaac ttcctgatcc cgaacacgga
     1921 gcttctgacc ggcaagcggc tacagccgta ttacgaccgc gccgaccgtc cgcgcatcga
     1981 tgcctggcag accatagtga acggcaggct ggggctgcat gacccgaacg cgccggagaa
     2041 ccggcgggtg ctggtctcgc cttccgcgct gccggaagcg aagcaggaag ccgcccaggc
     2101 gattacgagc ggcctgcttg cccttgcctc atccggggag ctgaaaacgc gtcaggacgt
     2161 cactgaggcg ctggaaagcg caggttttga ggtggtgcgc accacaaaaa gcagcatcag
     2221 cattgccgac ccggacgggg ggcgaaacat ccgactgaag ggagccatct atgaacagtc
     2281 ttttaacgct ggcgaaggac ttagagcaga aatcgaaagc gcagcagcag actaccggcg
     2341 agatgctgaa agccgcattc agcgagcacg agaagtctgt cagagcggaa ctgagcgaaa
     2401 gcgagaagag aatcagcgcc gccatcctcg accacgaccg gaagctgtcc tcagccatga
     2461 gccagcgcac gaaagggatg ctgcgcatgg tcagccagac gtggctgacc atcgttctgg
     2521 tctccgcgct gctgatagcg tcgagcgcgg gcattctgtg gtggcagggg cagcagatac
     2581 tcgagaacta tacgaccatc cgggagcaga agagcacgca ggccatgctg tcagagagga
     2641 acagcggcgt acagctctcg acctgcggcg agcagagacg ccgctgcgtg agggtgaacc
     2701 cggaagcggg acagttcgga gaggactcga gctggatgat actggcgggg aaatagcaca
     2761 tgacggagct ggaaaaacag ttgctgagcg cattagagca gctacagcag gactactcga
     2821 aaaggctgga cgagtgggag aacgccttcg cggaatggcg gacgatgtct ggtcttattc
     2881 aacgggagaa cgcggcgctg aacgagcgcg tcacggtctt gagcaggcag gtgcagagtt
     2941 tgagcgagca gctgcgccgg ttgtcgaaag gctgaacgcg atagaaactc accggcagca
     3001 ggagcgggcg gtgcagcacc agaaagcgct ggagctggaa cgatcgcagt ggcagcatca
     3061 tggtccttcg ctatgataag ccgggttcta ttaattagtt gttatgtaaa gatatttaaa
     3121 tttttcaaca tgaggtattt ttatgaatac atatattttc ctgggagggg ctattgtggc
     3181 tgaagtcata ggcaccatct ttatgaaata ttcagaagga ttt
//
