LOCUS       NZ_CP103476             2088 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Escherichia coli strain 4973 plasmid pMB9698_8, complete sequence.
ACCESSION   NZ_CP103476
VERSION     NZ_CP103476.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174076
            Assembly: GCF_024918135.1
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                   :: 250x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:21:07
            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)                     :: 5,330
            CDSs (total)                      :: 5,209
            Genes (coding)                    :: 5,011
            CDSs (with protein)               :: 5,011
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 198
            CDSs (without protein)            :: 198
            Pseudo Genes (ambiguous residues) :: 0 of 198
            Pseudo Genes (frameshifted)       :: 68 of 198
            Pseudo Genes (incomplete)         :: 129 of 198
            Pseudo Genes (internal stop)      :: 42 of 198
            Pseudo Genes (multiple problems)  :: 38 of 198
            Pseudo Genes (short protein)      :: 5 of 198
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103476.1.
            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="4973"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB9698_8"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2020-01-09"
                     /collected_by="MDACC"
                     /genotype="ST648"
     gene            join(1652..2088,1..529)
                     /locus_tag="M5S50_RS26525"
                     /old_locus_tag="M5S50_26530"
     CDS             join(1652..2088,1..529)
                     /locus_tag="M5S50_RS26525"
                     /old_locus_tag="M5S50_26530"
                     /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_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            533..799
                     /locus_tag="M5S50_RS26530"
                     /old_locus_tag="M5S50_26535"
     CDS             533..799
                     /locus_tag="M5S50_RS26530"
                     /old_locus_tag="M5S50_26535"
                     /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"
     Typing          2..189
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.9e-94"
ORIGIN
        1 acctgttcag gggtggatca gggctacgga ggtgacgcga ggtaaggatg gcagcgcaca
       61 tccgcatttt cactgtctgc tgatggtgca accttcttgg tttaaaggga agaactacgt
      121 taagcacgaa cgttgggtag aactctggcg cgattgcttg cgggtgaact atgagccgaa
      181 tatcgatatt cgggcagtaa aaactaagac aggtgaggtt gtggccaacg ttgccgagca
      241 actgcaaagc gcggttgctg aaacgctgaa atactccgtt aaaccggaag atatggcaaa
      301 cgatcctgag tggtttcttg agctgacgcg gcagcttcac aagcgccgtt ttatctcgac
      361 cggtggggcg ctaaaaaacg tcctccagtt ggatcgagaa accaatgagg atcttgtcat
      421 tgccgacgat gtaggggatg gcactgatga cgggaagcgg acggcgtttg tctgggattc
      481 aggtaaacgg cgttacaaac gcgcccctga gaaggataaa tcggattaac gtatgaatat
      541 taatattgaa tacctgaatg gaaataagac tattggttta ttttttttaa gaagtgaagc
      601 ggtgattcct gacaggttta aaaaccttat tttgcttatt gatggattaa gttttggcac
      661 atttggtttt catccgcacg aaggttttga ggatgaatta attttatata ttcagaaaac
      721 aaacgagagg gtaaaaactc tttttgtgaa aatagattta aacggtatca agtttggatt
      781 tttaagaacg cattcttagt tctggaaaag agccagcggc aggctgaggt gataggtacg
      841 agattgcatg caatctctag tgctctgtct atcctgcatt atcctcagca ttatcctcag
      901 ccttgccaac tcgacaccaa tgcaggatag acaatccgat gtcaaatgtt aacactctgc
      961 gagtggtaca ttttccccgg attatcgtcc tgagcctgcc gctggctctc tttctaccgc
     1021 ctcgctttgc tcgttgctca acgcctcaca gacacggatt aaaatccgca tccgttcacc
     1081 gttttttaaa gtccgttaaa agcatgatgc catctccgag agttaatctc gtcaaatgct
     1141 aaatcgtggg ggtccccttt ggggttccga tttagtgatt gacgacacca ccgattaaaa
     1201 aacttatgcg gggtggatgg tttcacgaag tgaggccatc cacctgtaag acagggtttt
     1261 gtttttattc cctgttttgg tgatcgggtg tgtggaaaag gttggggtaa gccgttcggg
     1321 ggtgcttgtt ttgggggtta aaattgtggt tattttttgc gcaattctcg cgcgtgatcc
     1381 ttgtatttat acttaaggga taaatggcgg atatgaaata gtggtttagc ccagtaatga
     1441 cgaggctttg agtgggtttt gacaggtcaa agaaaatgga gcagaattga ggcgttttta
     1501 atcggcgttg gggagtgcgt caacactccc caacatttcg aatgtgtcac ctcagcggca
     1561 aactctggtg acatgtactg gctcgcaatg cacaggtacg tgatgaatat accacatcaa
     1621 atcacagcct gcccagatcg gagcaggctt aatgtcagaa gataaattcc tttcggacta
     1681 cagcccccgt gatgcagttt gggataccca gcgcacgctt accgattctg tcgggggtat
     1741 ctaccagact gctgctgaat tcgagcgcta tgcactccgt atggcctcct gtagcggttt
     1801 gttacgtttt ggttggtcta ccatcatgga aaccggagaa acgcgcctac ggcttcgtag
     1861 tgcgcaattt tgccgtgtcc gtcattgccc tgtctgccag tggagaagaa ccctcatgtg
     1921 gcaagcccgt ttttatcagg ctctaccgaa aatcgttgtg gattacccgt cttcccgatg
     1981 gttgtttctg acgttaactg tcaggaactg cgagataggt gaacttggaa cagtccttac
     2041 agcaatgaat gcggcgttta agcgaatgga aaagcgaaag gagctatc
//
