LOCUS       NZ_AP027499             2088 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain LR-24 plasmid pLR-24_5, complete sequence.
ACCESSION   NZ_AP027499
VERSION     NZ_AP027499.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562515
            Assembly: GCF_036494955.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hoang,H.T.T., Yamamoto,M., Calvopina,M., Bastidas-Caldes,C.,
            Khong,D.T., Nguyen,T.N. and Yamamoto,Y.
  TITLE     Comparative genome analysis of colistin-resistant Escherichia coli
            strains possessing mcr isolated in Ecuador and Vietnam
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2088)
  AUTHORS   Yamamoto,Y. and Hoang,H.T.T.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-MAR-2023) Contact:Yoshimasa Yamamoto The United
            Graduate School of Drug Discovery and Medical Information Sciences,
            Gifu University; Yanagido 1-1, Gifu 501-1194, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Coverage                   :: 150x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036494955.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:16:19
            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)                     :: 4,965
            CDSs (total)                      :: 4,847
            Genes (coding)                    :: 4,564
            CDSs (with protein)               :: 4,564
            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)              :: 283
            CDSs (without protein)            :: 283
            Pseudo Genes (ambiguous residues) :: 0 of 283
            Pseudo Genes (frameshifted)       :: 96 of 283
            Pseudo Genes (incomplete)         :: 197 of 283
            Pseudo Genes (internal stop)      :: 56 of 283
            Pseudo Genes (multiple problems)  :: 63 of 283
            Pseudo Genes (short protein)      :: 3 of 283
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027499.1.
            Annotated by DFAST https://dfast.ddbj.nig.ac.jp/
            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="LR-24"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pLR-24_5"
                     /geo_loc_name="Ecuador:Santo Domingo"
                     /collection_date="2019"
     gene            79..1044
                     /locus_tag="AABK21_RS24820"
                     /old_locus_tag="VEE13_47590"
     CDS             79..1044
                     /locus_tag="AABK21_RS24820"
                     /old_locus_tag="VEE13_47590"
                     /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            1048..1314
                     /locus_tag="AABK21_RS24825"
                     /old_locus_tag="VEE13_47600"
     CDS             1048..1314
                     /locus_tag="AABK21_RS24825"
                     /old_locus_tag="VEE13_47600"
                     /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          473..704
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 tgtactggct cgcaatgcac aggtacgtga tgaatatacc acatcaaatc acagcctgcc
       61 cagatcggag caggcttaat gtcagaagat aaattccttt cggactacag cccccgtgat
      121 gcagtttggg atacccagcg cacgcttacc gattctgtcg ggggtatcta ccagactgct
      181 gctgaattcg agcgctatgc actccgtatg gcctcctgta gcggtttgtt acgttttggt
      241 tggtctacca tcatggaaac cggagaaacg cgcctacggc ttcgtagtgc gcaattttgc
      301 cgtgtccgtc attgccctgt ctgccagtgg agaagaaccc tcatgtggca agcccgtttt
      361 tatcaggctc taccgaaaat cgttgtggat tacccgtctt cccgatggtt gtttctgacg
      421 ttaactgtca ggaactgcga gataggtgaa cttggaacag tccttacagc aatgaatgcg
      481 gcgtttaagc gaatggaaaa gcgaaaggag ctatcacctg ttcaggggtg gatcagggct
      541 acggaggtga cgcgaggtaa ggatggcagc gcacatccgc attttcactg tctgctgatg
      601 gtgcaacctt cttggtttaa agggaagaac tacgttaagc acgaacgttg ggtagaactc
      661 tggcgcgatt gcttgcgggt gaactatgag ccgaatatcg atattcgggc agtaaaaact
      721 aagacaggtg aggttgtggc caacgttgcc gagcaactgc aaagcgcggt tgctgaaacg
      781 ctgaaatact ccgttaaacc ggaagatatg gcaaacgatc ctgagtggtt tcttgagctg
      841 acgcggcagc ttcacaagcg ccgttttatc tcgaccggtg gggcgctaaa aaacgtcctc
      901 cagttggatc gagaaaccaa tgaggatctt gtcattgccg acgatgtagg ggatggcact
      961 gatgacggga agcggacggc gtttgtctgg gattcaggta aacggcgtta caaacgcgcc
     1021 cctgagaagg ataaatcgga ttaacgtatg aatattaata ttgaatacct gaatggaaat
     1081 aagactattg gtttattttt tttaagaagt gaagcggtga ttcctgacag gtttaaaaac
     1141 cttattttgc ttattgatgg attaagtttt ggcacatttg gttttcatcc gcacgaaggt
     1201 tttgaggatg aattaatttt atatattcag aaaacaaacg agagggtaaa aactcttttt
     1261 gtgaaaatag atttaaacgg tatcaagttt ggatttttaa gaacgcattc ttagttctgg
     1321 aaaagagcca gcggcaggct gaggtgatag gtacgagatt gcatgcaatc tctagtgctc
     1381 tgtctatcct gcattatcct cagcattatc ctcagccttg ccaactcgac accaatgcag
     1441 gatagacaat ccgatgtcaa atgttaacac tctgcgagtg gtacattttc cccggattat
     1501 cgtcctgagc ctgccgctgg ctctctttct accgcctcgc tttgctcgtt gctcaacgcc
     1561 tcacagacac ggattaaaat ccgcatccgt tcaccgtttt ttaaagtccg ttaaaagcat
     1621 gatgccatct ccgagagtta atctcgtcaa atgctaaatc gtgggggtcc cctttggggt
     1681 tccgatttag tgattgacga caccaccgat taaaaaactt atgcggggtg gatggtttca
     1741 cgaagtgagg ccatccacct gtaagacagg gttttgtttt tattccctgt tttggtgatc
     1801 gggtgtgtgg aaaaggttgg ggtaagccgt tcgggggtgc ttgttttggg ggttaaaatt
     1861 gtggttattt tttgcgcaat tctcgcgcgt gatccttgta tttatactta agggataaat
     1921 ggcggatatg aaatagtggt ttagcccagt aatgacgagg ctttgagtgg gttttgacag
     1981 gtcaaagaaa atggagcaga attgaggcgt ttttaatcgg cgttggggag tgcgtcaaca
     2041 ctccccaaca tttcgaatgt gtcacctcag cggcaaactc tggtgaca
//
