LOCUS       NZ_CP070912             2136 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain 88COLEC plasmid p88COLEC-6.
ACCESSION   NZ_CP070912
VERSION     NZ_CP070912.1
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 2136)
  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 2136)
  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
            CP070912.1.
            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..2136
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="88COLEC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p88COLEC-6"
                     /geo_loc_name="Singapore"
                     /collection_date="2019-02"
     gene            complement(349..540)
                     /locus_tag="JR901_RS24525"
                     /old_locus_tag="JR901_24525"
     CDS             complement(349..540)
                     /locus_tag="JR901_RS24525"
                     /old_locus_tag="JR901_24525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041614.1"
                     /translation="MNKQQKTAVNMAKFIQDQSLLLLDRLNELDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1244..1774
                     /locus_tag="JR901_RS24530"
                     /old_locus_tag="JR901_24530"
     CDS             1244..1774
                     /locus_tag="JR901_RS24530"
                     /old_locus_tag="JR901_24530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010287135.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000012591.1"
                     /translation="MSGFIPFVGSKYENSIYGLKLLVLGLSHYGDADDNYPDFTKDVIA
                     ENAYTTGNRFFTILTNVLRLSRESITDDQRKITWENIAFYNYIQQIVGEKGRISPTKEM
                     WDSAREPFLSVIKQLQPNVILVLGTELWDHLPEVDGVEWCWIRHPSSSNFSYDQAFNNL
                     KKSIGMENIVYLP"
                     /name="hypothetical protein"
ORIGIN
        1 atgtaaaagt gttgtaaaag tgatgtatga actgaagaag caatgtaatt ctgtagtcag
       61 gaagaataac ccgttcatgc aggcatgaac gatacagtga ggaacgcttt ttttgtcacg
      121 atctcccctt aacctgcgta aatcacccgc catggttgat tatttttcaa cctcaaaata
      181 gtcatacacc taacgcagct gcgattttca tcgcaacttc atgaaaaata aataaaaaag
      241 aaaaaataaa gggattctgg gtattaccgg ggtaataata ttaagcgcca ggacaatgaa
      301 aattaaggcg atgccggtat tactccggta atacccagga cggagccatt acgcaccgtc
      361 ctgctgctca ttcaggcgcg ctgacaggct tcggtaaagg cgttccgcat cctcatggag
      421 tttctcgcag aaatcagcct catgatccag atccagctca ttaagcctgt ccagaagaag
      481 cagggactga tcctggatga atttagccat gttaacggct gtcttttgtt gtttgttcat
      541 gaaggccccg gcgcgaaagt gcttactgta cgttctgatg attttccgct tcctcgctca
      601 ttcgctcact tcgttcggtc atgagactgc ggtgagcgtt gctattttaa cattatgatt
      661 tgaagggagt tcatgctgta acctgcgact atgaagtcgt aagttactaa tagcgatgcc
      721 tttagttgta atttttatat ctctaaatgt acaaaagccc cgtgacagaa tcacagggct
      781 tcggtactct aattcgtgca gatacctgct ggattagacg tcgcaatcaa atcttagcag
      841 ggctggctag ccatgtcact accagcttaa taccattcaa cgacattaaa atcatatctg
      901 caccttagac gctcaggtct acgccccgga ctccggcagg ataaacaggc aaattggtgg
      961 gaacgtaact taaccgcgaa agagttaggc tctaccccgt ctcgctgtac gataacaagc
     1021 acctgataaa atgagcgaat aaggcagcag taagcgggaa agtgtgattg cgagaagtct
     1081 gacactaacc ccacacaaat cgaatccgtt gcaagatgag acacacaaga aaagagctgg
     1141 acgaaggtcg ctccgctccc cgtggttttt tatataccca ccacgggggc attaggtttt
     1201 tatgttcaaa aaacaaccat taccccgaag aaaggagtat gccatgagtg gtttcatacc
     1261 atttgtcggt agcaagtatg agaacagtat ctatgggcta aaattactgg tcttaggttt
     1321 gtcgcattat ggtgatgctg atgataacta tccagatttt actaaggatg ttattgcaga
     1381 gaatgcctat acaacaggta accgattctt cacgatactg actaatgtac ttcgattgtc
     1441 tagggaaagc ataactgatg atcaaaggaa gataacttgg gaaaacatag cgttctacaa
     1501 ctacatacaa caaattgttg gagaaaaagg tcgaatatct cccactaaag aaatgtggga
     1561 tagtgcccga gagccattcc taagtgtaat taagcaactc caaccaaatg tgatcctcgt
     1621 tctaggtact gaactttggg atcatcttcc tgaagttgat ggtgttgaat ggtgttggat
     1681 tagacatcca agctctagta atttctcata tgatcaagca tttaataacc tcaaaaaatc
     1741 aataggcatg gaaaatatcg tttatttacc ataacgtcac attacgcgca ccgctgaaac
     1801 ggcctgtgcg cgattttccc gcctgagcct caaaacaaca caccttaccc cccgaaaacc
     1861 gctcagaata gcttctgtga gttttacgcg catgaatcgt tatgcactca ggtgcatggc
     1921 aaccgattag cgacccgatt ctctgcctgg tcgttgaaac ccgatgaaaa gtccctcccg
     1981 aaaacggtga acggggacgc aatttattgc gtggccgtga ggcgttgccg gcacagccgg
     2041 aaaaaccgtt ttcagcacat tcaggaaggg ggtcggatgt acaaatggca cagaggatgg
     2101 aactgacgta aaagtgacgt atgagctgaa ggaatg
//
