LOCUS       NZ_AP027664             1983 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain PSJ-42 plasmid pPSJ-42_12, complete
            sequence.
ACCESSION   NZ_AP027664
VERSION     NZ_AP027664.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562565
            Assembly: GCF_036500485.1
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  JOURNAL   Unpublished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 1983)
  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                   :: 135x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036500485.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:14:17
            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)                     :: 5,040
            CDSs (total)                      :: 4,922
            Genes (coding)                    :: 4,743
            CDSs (with protein)               :: 4,743
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 179
            CDSs (without protein)            :: 179
            Pseudo Genes (ambiguous residues) :: 0 of 179
            Pseudo Genes (frameshifted)       :: 78 of 179
            Pseudo Genes (incomplete)         :: 115 of 179
            Pseudo Genes (internal stop)      :: 32 of 179
            Pseudo Genes (multiple problems)  :: 41 of 179
            Pseudo Genes (short protein)      :: 2 of 179
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027664.1.
            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..1983
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PSJ-42"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pPSJ-42_12"
                     /geo_loc_name="Ecuador:Puyo"
                     /collection_date="2019"
     gene            join(1783..1983,1..789)
                     /locus_tag="AABK18_RS25190"
                     /old_locus_tag="VEE39_48170"
     CDS             join(1783..1983,1..789)
                     /locus_tag="AABK18_RS25190"
                     /old_locus_tag="VEE39_48170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001362017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_011117490.1"
                     /translation="MKNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMLSGDGYVKHARWVELWRECLRVSYNPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     gene            943..1374
                     /locus_tag="AABK18_RS25195"
     CDS             943..1374
                     /locus_tag="AABK18_RS25195"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_148689360.1"
                     /translation="MSAHFVRFPDCQFVDRAEQLWHENGRMICCPVARTARLRGGRRGA
                     KNCRHCASVPVTQTRRNRDRMWECRTAHARSDIPHLVRASPRHPANASRHAKKFRVPLT
                     VLELVKQKIAGPRASGVGSDFVIDDGTGKTLGMVVGVTE"
                     /name="hypothetical protein"
     Typing          complement(788..869)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.181"
                     /coverage="83.0"
                     /evalue="8.21e-29"
     Typing          1132..1210
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.25"
                     /coverage="83.0"
                     /evalue="8.21e-29"
     Typing          complement(516..707)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.83e-96"
ORIGIN
        1 ctgaggctgc gtgaggcgca tttctgccgt gtccggcact gtcctgtctg ccagtggagg
       61 cgctccctga tgtggcaagc ccgtttctac cagtccctgc cgcgtatcgt ggcggattac
      121 cctgatgccc gctggatgtt cctgaccctg accgtgcgca actgtgcgat tggggaactg
      181 ggcgagatgc tgaaccggat gaatgcagct tttcagcgta tgaaggttcg caaggagttc
      241 ctgcctgttc agggctggat ccgcacaacg gaagttaccc gcggcagcga cggcagcgcg
      301 catccccact tccacaccct gatgatggtg ccgccctcaa tgctatctgg tgacgggtac
      361 gtaaaacatg ctcgctgggt tgaactctgg cgggagtgcc tgcgggtcag ttacaacccg
      421 aatgttgatg tccgggcagt aaaaccccgt aagccaaagg atggcgagtc cttagcctgc
      481 gcgaccgctg aactggtgcg cggcgcagtg gccgaaaccc tgaaatattc cacgaagccg
      541 gctgacatgg tggccgatcc tgaatggttc ctcgaactga cccgccagac gcacaagcgc
      601 cgctttgtgg cgaccggcgg cgcactcaaa gacgtgctga aactcgatca ggaaaccgac
      661 gccgacatgg tgatcgggga tgatatttcc gagggcgacg atgacggttc acgcatcgcg
      721 ttcgagtgga aaaccgaggt cagaaagtac cgtcgctcac cgacgaaaga taaaactgaa
      781 tcaggctagc ggggtgtcgg ggcgaagccc tgaccaggtg gggaatgtct gagcgagcgt
      841 gcgcggtccg acattcccac atcctgtccc gaaaattccc gccgtttctc ggttttttga
      901 gcgtcgcaga ccgcacgaca aacgaaacga agtgtagttt gtatgagtgc gcacttcgtg
      961 agattccccg actgccagtt tgtcgatcgc gcggaacagc tgtggcacga aaacggcaga
     1021 atgatttgct gtccggttgc cagaactgcg cgcttacgtg gagggcggcg cggcgcaaaa
     1081 aactgccgac attgcgccag tgttccggtg acacaaaccc gcagaaatcg ggacaggatg
     1141 tgggaatgtc ggaccgcgca cgctcgctca gacattcccc acctggtcag ggcttcgccc
     1201 cgacaccccg ccaacgcctc acggcacgcg aaaaaattcc gcgtaccgct caccgttctt
     1261 gaactcgtca aacagaaaat cgcggggccc cgcgcctccg gcgtgggttc cgattttgtg
     1321 attgacgacg gcacggggaa aacgctgggt atggtggttg gtgtcacgga gtgaggccaa
     1381 ccacctgcaa gacggttttt tgttgttcac aaaattgggg tgaaagtctg tggatgagat
     1441 gggtgtaagt gggtggggtt gggaggtttt gggttactga aaatccagct caaaattcaa
     1501 gcaaatctcg cgcgcgatcc ttgtatttat acttaaggga taactctagg attcaaattg
     1561 gcctccagcc cttgtcccgc aaggcttgag ggcacatttg ctccgaaatg ggtttagaag
     1621 tattctgtcg gaagtggtcg cgttaaaagc gacccccgca acgagggcaa tcgttcgggg
     1681 gcgtgaccac ctgtagaaat tcgaattagt gacacgacaa cacaggtgat atggcaatga
     1741 taacacgtca gatgagccat cgcccacaat cgggtggtgc gcatgaaaaa ccctaaactc
     1801 cagtacctca ctgattattc cccctctgac gcgccctggg acgcacacag aagcgtttct
     1861 gacgacgtgg gagggattta cctgcttgcg gccgaatatg agcgctacgg ggctcgtatg
     1921 gcctcctgtg gcggtttact gcgtttcggg tggtctaccc tcaaggaaac cggagaaacg
     1981 cgt
//
