LOCUS       NZ_CP103652             2088 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Escherichia coli strain 961 plasmid pMB5823_7, complete sequence.
ACCESSION   NZ_CP103652
VERSION     NZ_CP103652.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28173990
            Assembly: GCF_024918295.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2088)
  AUTHORS   Shropshire,W.C., Konovalova,A., McDaneld,P.M., Gohel,M., Strope,B.,
            Sahasrabhojane,P., Tran,C.N., Greenberg,D.E., Kim,J., Zhan,X.,
            Aitken,S.L., Bhatti,M., Tor,S., Treangen,T., Hanson,B.M., Arias,C.A.
            and Shelburne,S.A.
  TITLE     Systematic Analysis of Mobile Genetic Elements Mediating
            Beta-lactamase Gene Amplification in Non-Carbapenemase-Producing
            Carbapenem Resistant Enterobacterales Bloodstream Infections
  JOURNAL   mSystems (2022) In press
REFERENCE   2  (bases 1 to 2088)
  AUTHORS   Shropshire,W.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-AUG-2022) Infectious Diseases and Infection Control,
            University of Texas MD Anderson Cancer Center, South Campus Research
            Building 4, Houston, TX 77054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.8.3-b1695
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 61x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:24:23
            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)                     :: 5,145
            CDSs (total)                      :: 5,020
            Genes (coding)                    :: 4,743
            CDSs (with protein)               :: 4,743
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 277
            CDSs (without protein)            :: 277
            Pseudo Genes (ambiguous residues) :: 0 of 277
            Pseudo Genes (frameshifted)       :: 93 of 277
            Pseudo Genes (incomplete)         :: 197 of 277
            Pseudo Genes (internal stop)      :: 55 of 277
            Pseudo Genes (multiple problems)  :: 63 of 277
            Pseudo Genes (short protein)      :: 4 of 277
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103652.1.
            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..2088
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="961"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB5823_7"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2018-06-18"
                     /collected_by="MDACC"
                     /genotype="ST617"
     gene            1..267
                     /locus_tag="M5R18_RS25570"
                     /old_locus_tag="M5R18_25570"
     CDS             1..267
                     /locus_tag="M5R18_RS25570"
                     /old_locus_tag="M5R18_25570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     gene            1120..2085
                     /locus_tag="M5R18_RS25575"
                     /old_locus_tag="M5R18_25575"
     CDS             1120..2085
                     /locus_tag="M5R18_RS25575"
                     /old_locus_tag="M5R18_25575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_039064478.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLAIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     Typing          1514..1745
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 atgaatatta atattgaata cctgaatgga aataagacta ttggtttatt ttttttaaga
       61 agtgaagcgg tgattcctga caggtttaaa aaccttattt tgcttattga tggattaagt
      121 tttggcacat ttggttttca tccgcacgaa ggttttgagg atgaattaat tttatatatt
      181 cagaaaacaa acgagagggt aaaaactctt tttgtgaaaa tagatttaaa cggtatcaag
      241 tttggatttt taagaacgca ttcttagttc tggaaaagag ccagcggcag gctgaggtga
      301 taggtacgag attgcatgca atctctagtg ctctgtctat cctgcattat cctcagcatt
      361 atcctcagcc ttgccaactc gacaccaatg caggatagac aatccgatgt caaatgttaa
      421 cactctgcga gtggtacatt ttccccggat tatcgtcctg agcctgccgc tggctctctt
      481 tctaccgcct cgctttgctc gttgctcaac gcctcacaga cacggattaa aatccgcatc
      541 cgttcaccgt tttttaaagt ccgttaaaag catgatgcca tctccgagag ttaatctcgt
      601 caaatgctaa atcgtggggg tcccctttgg ggttccgatt tagtgattga cgacaccacc
      661 gattaaaaaa cttatgcggg gtggatggtt tcacgaagtg aggccatcca cctgtaagac
      721 agggttttgt ttttatcccc tgttttggtg atcgggtgtg tggaaaaggt tggggtaagc
      781 cgttcggggt gcttgttttg gggggttaaa attgtggtta ttttttgcgc aattctcgcg
      841 cgtgatcctt gtatttatac ttaagggata aatggcgggt atgaaatagt ggtttagccc
      901 agtaatgacg aggctttgag tgggttttga caggtcaaag aaaatggagc agaattgagg
      961 cgtttttaat cggcgttggg gagtgcgtca acactcccca acatttcgaa tgtgtcacct
     1021 cagcggcaaa ctctggtgac atgtactggc tcgcaatgca caggtacgtg atgaatatac
     1081 cacatcaaat cacagcctgc ccagatcgga gcaggcttaa tgtcagaaga taaattcctt
     1141 tcggactaca gcccccgtga tgcagtttgg gatacccagc gcacgcttac cgattctgtc
     1201 gggggtatct accagactgc tgctgaattc gagcgctatg cactccgtat ggcctcctgt
     1261 agcggtttgt tacgttttgg ttggtctacc atcatggaaa ccggagaaac gcgcctacgg
     1321 cttcgtagtg cgcaattttg ccgtgtccgt cattgccctg tctgccagtg gagaagaacc
     1381 ctcatgtggc aagcccgttt ttatcaggct ctaccgaaaa tcgttgtgga ttacccgtct
     1441 tcccgatggt tgtttctgac gttaactgtc aggaactgcg agataggtga acttggaaca
     1501 gtccttacag caatgaatgc ggcgtttaag cgaatggaaa agcgaaagga gctatcacct
     1561 gttcaggggt ggatcagggc tacggaggtg acgcgaggta aggatggcag cgcacatccg
     1621 cattttcact gtctgctgat ggtgcaacct tcttggttta aagggaagaa ctacgttaag
     1681 cacgaacgtt gggtagaact ctggcgcgat tgcttgcggg tgaactatga gccgaatatc
     1741 gatattcggg cagtaaaaac taagacaggt gaggttgtgg ccaacgttgc cgagcaactg
     1801 caaagcgcgg ttgctgaaac gctgaaatac tccgttaaac cggaagatat ggcaaacgat
     1861 cctgagtggt ttcttgagct gacgcggcag cttcacaagc gccgttttat ctcgaccggt
     1921 ggagcgctaa aaaacgtcct ccagttggat cgagaaacca atgaggatct tgccattgcc
     1981 gacgatgtag gggatggcac tgatgacggg aagcggacgg cgtttgtctg ggattcaggt
     2041 aaacggcgtt acaaacgcgc ccctgagaag gataaatcgg attaacgt
//
