LOCUS       NZ_CP070911             2137 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain 88COLEC plasmid p88COLEC-5.
ACCESSION   NZ_CP070911
VERSION     NZ_CP070911.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17807536
            Assembly: GCF_017088425.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2137)
  AUTHORS   Ding,Y., Saw,W.-Y., Tan,L.W.L., Moong,D.K.N., Nagarajan,N., Teo,Y.Y.
            and Seedorf,H.
  TITLE     Whole-genome analysis of antimicrobial-resistant Escherichia coli in
            human gut microbiota reveals its origin and flexibility in
            transmitting mcr-1
  JOURNAL   bioRxiv (2021)
REFERENCE   2  (bases 1 to 2137)
  AUTHORS   Ding,Y. and Seedorf,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Henning Seedorf Group, Temasek Life Sciences
            Laboratory Limited, 1 Research Link National University of Singapore
            Singapore, Singapore 117604, Singapore
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 367x
            Sequencing Technology :: Illumina NovaSeq Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 06:41:50
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,960
            CDSs (total)                      :: 4,841
            Genes (coding)                    :: 4,641
            CDSs (with protein)               :: 4,641
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 200
            CDSs (without protein)            :: 200
            Pseudo Genes (ambiguous residues) :: 0 of 200
            Pseudo Genes (frameshifted)       :: 51 of 200
            Pseudo Genes (incomplete)         :: 150 of 200
            Pseudo Genes (internal stop)      :: 27 of 200
            Pseudo Genes (multiple problems)  :: 26 of 200
            Pseudo Genes (short protein)      :: 2 of 200
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070911.1.
            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/
FEATURES             Location/Qualifiers
     source          1..2137
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="88COLEC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p88COLEC-5"
                     /geo_loc_name="Singapore"
                     /collection_date="2019-02"
     gene            complement(397..1392)
                     /locus_tag="JR901_RS24520"
                     /old_locus_tag="JR901_24520"
     CDS             complement(397..1392)
                     /locus_tag="JR901_RS24520"
                     /old_locus_tag="JR901_24520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020240588.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_038989441.1"
                     /translation="MQNPKLKNLTDYSPDDKPWDVHKSQSDDVGGIYLRAAEFEAYAAR
                     MRDCGGLLRFGWSTLKDTGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPKIV
                     ADYPDARWMFLTLTVRNCAIEDLGDTLTAMNAAFQRMKVRKEFKSVQGWIRTTEVTRGR
                     DGSAHPHFHTLMMVPPGMLNGHDYVKHYRWVELWRDCLRVDYDPNVDVRAVKPRKPKDG
                     QTLACATAELVRGAVAETLKYSTKPADMVADPDWFLELTRQTHKRRFVATGGALKDVLK
                     LEQETDQDMVIGDDISDGEDDGSRLAFGWDSTPRKYVRLPERDKFKSDPD"
                     /name="protein rep"
     Typing          487..677
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.375"
                     /coverage="98.0"
                     /evalue="1.4200000000000001e-44"
ORIGIN
        1 gggtaaaaag cggctttaca gggcgatggc tcaccatgtg aaccatcacc catcacaagg
       61 gtatgagggg tgcagtcgta caaccactaa atcggaaccc taaagggatc ccccgattta
      121 gaagttgacg attcgacggc ggcgaacgct gtcagattta atattccatt gagcagagtg
      181 cgaataaggc aggcgtaaag tggtcccact ttacatatcc tgcccgaatt ctgccgttga
      241 ttattcgtgt atgcgtgtat gtatgcagag tggaaatctc agggaaaccc gaaggaatgc
      301 caaaggaaat ctgtgtaccg gacaagatgt gtttttggag taccgccaca cgcagcggca
      361 tccaaaaaca acctggtcag ggcaggcccc gacaccctaa tcaggatctg atttaaactt
      421 atcgcgttca ggcaaacgga cgtattttct tggcgtcgaa tcccagccaa aggcgaggcg
      481 tgaaccatcg tcttcaccat cggaaatatc atccccgatc accatgtcct gatccgtttc
      541 ctgctccagt ttcagaacgt ctttcagagc gccaccggtc gcaacaaaac ggcgtttatg
      601 cgtctgccgg gtcagctcta agaaccagtc cgggtcggca accatatcag ccggctttgt
      661 cgaatatttc agggtttcag caacggcacc gcgcaccagt tcagcagtgg cacatgccag
      721 agtctggcca tctttaggct tgcggggttt cactgcccga acatcaacat taggatcgta
      781 atcaacgcgc aggcagtcac gccagagttc aacccagcgg tagtgcttaa cgtagtcatg
      841 accgttcagc atcccaggag gaaccatcat cagggtgtga aagtgggggt gtgcagagcc
      901 atcacgaccg cgggtaactt ctgtggtgcg aatccatccc tgtacggatt taaattcctt
      961 gcgaaccttc atgcgctgga atgcggcatt catggcagta agcgtgtccc cgagatcctc
     1021 gatcgcacag ttgcgaacgg tgagcgtgag gaacatccag cgggcatcag ggtaatcagc
     1081 gacgattttc ggcagagact gataaaaacg ggcttgccac atcagggaac gcctccactg
     1141 gcagacaggg cagtgacgaa cgcggcagaa atgcgcctca cgaagccgta aacgcgtttc
     1201 tccggtgtct ttaagggtag accagccaaa acgcagcaag ccgccacaat cgcgcatacg
     1261 agccgcatac gcctcaaatt cagctgcacg cagatagata ccgccaacat catcagattg
     1321 cgacttgtga acgtcccacg gcttatcgtc gggactgtag tcagtaaggt tctttagctt
     1381 aggattctgc atagcacctg ctccaatatg ggcaggcgct ggaagggtgt gttatcattt
     1441 ccgtatcacc tgttgcgagt cgatttcaag ccgtatttag ccaggtgatc gcgcccctga
     1501 agtgttggta gcacttgcag gggtttctca tatcatcgtg tcagtaagta aggtcttggg
     1561 aaccacccca agtaatcaaa aattagttcg cggacacgat cacctgtcag aaatcatact
     1621 cacaaaacca ttttcgagca aattggctct caggccttgc ggcacaaggg ctggaagcga
     1681 atttgaatcc tagagttatc ccttaagtat aaatacaagg atttcgcccc tttcagggcc
     1741 gaaaaaccaa cccccaaaag cagcattcag gcactcaaac actcaagcat tcgtaagctc
     1801 aaaaattaag caaaccacgt taaatcgccc cccctgagaa atgtcagatt gagacaaacg
     1861 tgcagtatta cattcactgc acgcggctgt ttccgttgca aatcgcaaca agagtccact
     1921 attaaacaga gtggaccccg attccgaacg gcgtgtgcct cctcgcagag ctgcgggggc
     1981 aatccccgtt cctcatcgcg gccgcacgac tttaccccgc atactcctga tggcggattt
     2041 aaacgaataa ggcataccga gcaaaacgaa aataccccca cggcatcacc tgtagggcag
     2101 ggcttacgca cctaccccac aggcaacgcc ttgaagg
//
