LOCUS       NZ_CP123236             2112 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli strain 5132 plasmid pMB11100_5, complete sequence.
ACCESSION   NZ_CP123236
VERSION     NZ_CP123236.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32977680
            Assembly: GCF_029855145.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2112)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Dynamic Periodicity of Extended-Spectrum Cephalosporin Resistant
            Bloodstream Escherichia coli Infections Driven by Non-CC131 Strains
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2112)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-MAR-2023) Infectious Diseases and Infection Control,
            University of Texas MD Anderson Cancer Center, South Campus Research
            Building 4, Houston, TEXAS 77054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2023
            Assembly Method                   :: Flye v. 2.9.1-b1780
            Assembly Name                     :: MB11100
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 106.0x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029855145.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 05:37:50
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,092
            CDSs (total)                      :: 4,975
            Genes (coding)                    :: 4,753
            CDSs (with protein)               :: 4,753
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 222
            CDSs (without protein)            :: 222
            Pseudo Genes (ambiguous residues) :: 0 of 222
            Pseudo Genes (frameshifted)       :: 92 of 222
            Pseudo Genes (incomplete)         :: 152 of 222
            Pseudo Genes (internal stop)      :: 37 of 222
            Pseudo Genes (multiple problems)  :: 52 of 222
            Pseudo Genes (short protein)      :: 1 of 222
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP123236.1.
            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..2112
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="5132"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB11100_5"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2020-10-02"
                     /collected_by="MDACC"
                     /genotype="ST1193"
     gene            join(1563..2112,1..416)
                     /locus_tag="QET41_RS25375"
                     /old_locus_tag="QET41_25375"
     CDS             join(1563..2112,1..416)
                     /locus_tag="QET41_RS25375"
                     /old_locus_tag="QET41_25375"
                     /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            420..686
                     /locus_tag="QET41_RS25380"
                     /old_locus_tag="QET41_25380"
     CDS             420..686
                     /locus_tag="QET41_RS25380"
                     /old_locus_tag="QET41_25380"
                     /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          1957..2112
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.63e-76"
ORIGIN
        1 actacgttaa gcacgaacgt tgggtagaac tctggcgcga ttgcttgcgg gtgaactatg
       61 agccgaatat cgatattcgg gcagtaaaaa ctaagacagg tgaggttgtg gccaacgttg
      121 ccgagcaact gcaaagcgcg gttgctgaaa cgctgaaata ctccgttaaa ccggaagata
      181 tggcaaacga tcctgagtgg tttcttgagc tgacgcggca gcttcacaag cgccgtttta
      241 tctcgaccgg tggggcgcta aaaaacgtcc tccagttgga tcgagaaacc aatgaggatc
      301 ttgtcattgc cgacgatgta ggggatggca ctgatgacgg gaagcggacg gcgtttgtct
      361 gggattcagg taaacggcgt tacaaacgcg cccctgagaa ggataaatcg gattaacgta
      421 tgaatattaa tattgaatac ctgaatggaa ataagactat tggtttattt tttttaagaa
      481 gtgaagcggt gattcctgac aggtttaaaa accttatttt gcttattgat ggattaagtt
      541 ttggcacatt tggttttcat ccgcacgaag gttttgagga tgaattaatt ttatatattc
      601 agaaaacaaa cgagagggta aaaactcttt ttgtgaaaat agatttaaac ggtatcaagt
      661 ttggattttt aagaacgcat tcttagttct ggaaaagagc cagcggcagg ctgaggtgat
      721 aggtacgaga ttgcatgcaa tctctagtgc tctgtctatc ctgcattatc ctcagcatta
      781 tcctcagcat tatcctcagc attatcctca gccttgccaa ctcgacacca atgcaggata
      841 gacaatccga tgtcaaatgt taacactctg cgagtggtac attttccccg gattatcgtc
      901 ctgagcctgc cgctggctct ctttctaccg cctcgctttg ctcgttgctc aacgcctcac
      961 agacacggat taaaatccgc atccgttcac cgttttttaa agtccgttaa aagcatgatg
     1021 ccatctccga gagttaatct cgtcaaatgc taaatcgtgg gggtcccctt tggggttccg
     1081 atttagtgat tgacgacacc accgattaaa aaacttatgc ggggtggatg gtttcacgaa
     1141 gtgaggccat ccacctgtaa gacagggttt tgtttttatt ccctgttttg gtgatcgggt
     1201 gtgtggaaaa ggttggggta agccgttcgg gggtgcttgt tttgggggtt aaaattgtgg
     1261 ttattttttg cgcaattctc gcgcgtgatc cttgtattta tacttaaggg ataaatggcg
     1321 gatatgaaat agtggtttag cccagtaatg acgaggcttt gagtgggttt tgacaggtca
     1381 aagaaaatgg agcagaattg aggcgttttt aatcggcgtt ggggagtgcg tcaacactcc
     1441 ccaacatttc gaatgtgtca cctcagcggc aaactctggt gacatgtact ggctcgcaat
     1501 gcacaggtac gtgatgaata taccacatca aatcacagcc tgcccagatc ggagcaggct
     1561 taatgtcaga agataaattc ctttcggact acagcccccg tgatgcagtt tgggataccc
     1621 agcgcacgct taccgattct gtcgggggta tctaccagac tgctgctgaa ttcgagcgct
     1681 atgcactccg tatggcctcc tgtagcggtt tgttacgttt tggttggtct accatcatgg
     1741 aaaccggaga aacgcgccta cggcttcgta gtgcgcaatt ttgccgtgtc cgtcattgcc
     1801 ctgtctgcca gtggagaaga accctcatgt ggcaagcccg tttttatcag gctctaccga
     1861 aaatcgttgt ggattacccg tcttcccgat ggttgtttct gacgttaact gtcaggaact
     1921 gcgagatagg tgaacttgga acagtcctta cagcaatgaa tgcggcgttt aagcgaatgg
     1981 aaaagcgaaa ggagctatca cctgttcagg ggtggatcag ggctacggag gtgacgcgag
     2041 gtaaggatgg cagcgcacat ccgcattttc actgtctgct gatggtgcaa ccttcttggt
     2101 ttaaagggaa ga
//
