LOCUS       NZ_CP049842             2113 bp    DNA     circular CON 07-SEP-2023
DEFINITION  Escherichia coli strain UPEC-455U/190220 plasmid pEcoUTI1b, complete
            sequence.
ACCESSION   NZ_CP049842
VERSION     NZ_CP049842.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14277528
            Assembly: GCF_019443605.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2113)
  AUTHORS   Velez-Sanchez,D., Ochoa,S.A., Cruz-Cordova,A., Lopez-Martinez,B.,
            Parra-Ortega,I., Escobedo-Munoz,A.S., Bustos,P., Cevallos,M.A. and
            Xicohtencatl-Cortes,J.
  TITLE     Comparative Genomics of Uropathogenic Escherichia coli Strains
            Isolated from Adult Women with Recurrent Urinary Tract Infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2113)
  AUTHORS   Velez-Sanchez,D., Ochoa,S.A., Cruz-Cordova,A., Lopez-Martinez,B.,
            Parra-Ortega,I., Escobedo-Munoz,A.S., Bustos,P., Cevallos,M.A. and
            Xicohtencatl-Cortes,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-MAR-2020) Centro de Ciencias Genomicas, Universidad
            Nacional Autonoma de Mexico, Circuito Universidad, Cuernavaca 66210,
            Mexico
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 19-FEB-2020
            Assembly Method                   :: Unicycler v. v0.4.1
            Assembly Name                     :: UTI-3_GENOME
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 286.563x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/07/2023 05:46:49
            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)                     :: 5,119
            CDSs (total)                      :: 5,000
            Genes (coding)                    :: 4,774
            CDSs (with protein)               :: 4,774
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 226
            CDSs (without protein)            :: 226
            Pseudo Genes (ambiguous residues) :: 1 of 226
            Pseudo Genes (frameshifted)       :: 90 of 226
            Pseudo Genes (incomplete)         :: 151 of 226
            Pseudo Genes (internal stop)      :: 37 of 226
            Pseudo Genes (multiple problems)  :: 50 of 226
            Pseudo Genes (short protein)      :: 4 of 226
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP049842.1.
            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..2113
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="UPEC-455U/190220"
                     /isolation_source="bladder epithelial biopsy from
                     60-year-old female patient with recurrent urinary tract
                     infection"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEcoUTI1b"
                     /geo_loc_name="Mexico: Mexico City"
                     /collection_date="2019-02-20"
                     /collected_by="Hospital Militar de Especialidades de la
                     mujer y neonatologia"
     gene            join(1439..2113,1..291)
                     /locus_tag="G9W36_RS24805"
                     /old_locus_tag="G9W36_24745"
     CDS             join(1439..2113,1..291)
                     /locus_tag="G9W36_RS24805"
                     /old_locus_tag="G9W36_24745"
                     /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            295..561
                     /locus_tag="G9W36_RS24810"
                     /old_locus_tag="G9W36_24750"
     CDS             295..561
                     /locus_tag="G9W36_RS24810"
                     /old_locus_tag="G9W36_24750"
                     /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          1833..2064
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 caactgcaaa gcgcggttgc tgaaacgctg aaatactccg ttaaaccgga agatatggca
       61 aacgatcctg agtggtttct tgagctgacg cggcagcttc acaagcgccg ttttatctcg
      121 accggtgggg cgctaaaaaa cgtcctccag ttggatcgag aaaccaatga ggatcttgtc
      181 attgccgacg atgtagggga tggcactgat gacgggaagc ggacggcgtt tgtctgggat
      241 tcaggtaaac ggcgttacaa acgcgcccct gagaaggata aatcggatta acgtatgaat
      301 attaatattg aatacctgaa tggaaataag actattggtt tatttttttt aagaagtgaa
      361 gcggtgattc ctgacaggtt taaaaacctt attttgctta ttgatggatt aagttttggc
      421 acatttggtt ttcatccgca cgaaggtttt gaggatgaat taattttata tattcagaaa
      481 acaaacgaga gggtaaaaac tctttttgtg aaaatagatt taaacggtat caagtttgga
      541 tttttaagaa cgcattctta gttctggaaa agagccagcg gcaggctgag gtgataggta
      601 cgagattgca tgcaatctct agtgctctgt ctatcctgca ttatcctcag cattatcctc
      661 agcattatcc tcagcattat cctcagcctt gccaactcga caccaatgca ggatagacaa
      721 tccgatgtca aatgttaaca ctctgcgagt ggtacatttt ccccggatta tcgtcctgag
      781 cctgccgctg gctctctttc taccgcctcg ctttgctcgt tgctcaacgc ctcacagaca
      841 cggattaaaa tccgcatccg ttcaccgttt tttaaagtcc gttaaaagca tgatgccatc
      901 tccgagagtt aatctcgtca aatgctaaat cgtgggggtc ccctttgggg ttccgattta
      961 gtgattgacg acaccaccga ttaaaaaact tatgcggggt ggatggtttc acgaagtgag
     1021 gccatccacc tgtaagacag ggttttgttt ttattccctg ttttggtgat cgggtgtgtg
     1081 gaaaaggttg gggtaagccg ttcgggggtg cttgttttgg ggggttaaaa ttgtggttat
     1141 tttttgcgca attctcgcgc gtgatccttg tatttatact taagggataa atggcggata
     1201 tgaaatagtg gtttagccca gtaatgacga ggctttgagt gggttttgac aggtcaaaga
     1261 aaatggagca gaattgaggc gtttttaatc ggcgttgggg agtgcgtcaa cactccccaa
     1321 catttcgaat gtgtcacctc agcggcaaac tctggtgaca tgtactggct cgcaatgcac
     1381 aggtacgtga tgaatatacc acatcaaatc acagcctgcc cagatcggag caggcttaat
     1441 gtcagaagat aaattccttt cggactacag cccccgtgat gcagtttggg atacccagcg
     1501 cacgcttacc gattctgtcg ggggtatcta ccagactgct gctgaattcg agcgctatgc
     1561 actccgtatg gcctcctgta gcggtttgtt acgttttggt tggtctacca tcatggaaac
     1621 cggagaaacg cgcctacggc ttcgtagtgc gcaattttgc cgtgtccgtc attgccctgt
     1681 ctgccagtgg agaagaaccc tcatgtggca agcccgtttt tatcaggctc taccgaaaat
     1741 cgttgtggat tacccgtctt cccgatggtt gtttctgacg ttaactgtca ggaactgcga
     1801 gataggtgaa cttggaacag tccttacagc aatgaatgcg gcgtttaagc gaatggaaaa
     1861 gcgaaaggag ctatcacctg ttcaggggtg gatcagggct acggaggtga cgcgaggtaa
     1921 ggatggcagc gcacatccgc attttcactg tctgctgatg gtgcaacctt cttggtttaa
     1981 agggaagaac tacgttaagc acgaacgttg ggtagaactc tggcgcgatt gcttgcgggt
     2041 gaactatgag ccgaatatcg atattcgggc agtaaaaact aagacaggtg aggttgtggc
     2101 caacgttgcc gag
//
