LOCUS       NZ_CP070913             1917 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain 88COLEC plasmid p88COLEC-7.
ACCESSION   NZ_CP070913
VERSION     NZ_CP070913.1
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 1917)
  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 1917)
  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
            CP070913.1.
            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..1917
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="88COLEC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p88COLEC-7"
                     /geo_loc_name="Singapore"
                     /collection_date="2019-02"
     gene            878..1114
                     /locus_tag="JR901_RS24535"
                     /old_locus_tag="JR901_24535"
     CDS             878..1114
                     /locus_tag="JR901_RS24535"
                     /old_locus_tag="JR901_24535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_012772745.1"
                     /translation="MARLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IELQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     gene            complement(1374..1676)
                     /locus_tag="JR901_RS24540"
                     /old_locus_tag="JR901_24540"
     CDS             complement(1374..1676)
                     /locus_tag="JR901_RS24540"
                     /old_locus_tag="JR901_24540"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005161566.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TM2 domain-containing protein"
                     /protein_id="WP_031942343.1"
                     /translation="MSSMVYCRGCGKEIHETAKSCPHCGATNASSGSGEKSRIAAALLA
                     FFLGGFGAHKFYLGKIGQGFLYLIFCWTFIPAIIAFIEFIIYLCDSDEKFARKYG"
                     /name="TM2 domain-containing protein"
     Typing          540..713
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          complement(70..561)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 aaccaaatct gttctttcag tttagcctta acaggcgcat aacttcaaga ctaactcctc
       61 taaatcagtt accagtggct gctgccagtg gcgataagtc gtgtctttcc gggttggact
      121 caagatgata gttaccggat aaggcgcagc agtcggactg aacggggggt tcgtgcatac
      181 agtccatcca ggagcgaact gccttcgcgg aactgagtgt caggcgtgga atgagataaa
      241 cgcggccata acagcggaat gacaccggta aaccgaaagg caggaatgcg ggggagcacg
      301 agggagccac cagggggaaa cgcctggtat ctttaagccg catcgggttt cgccaccact
      361 gatttgagcg tcagatttca tgatgtttgt caggggggcg gagcctatgg aaaaacggct
      421 tcgccgcggc cttatctctt ccctgttaag ctccttcctg gtatctccca ggaaatttcc
      481 gccccgcctg taagccggca ccgctcgccg cagccgaacg accgagcgca gcgagtcagt
      541 gagcgaggaa gcggaatata tcctgtacta catatcctgc tgacgcgctg gtgccgcctt
      601 ttttctcctg ctacatgaag cacttcactg atttccacat ccgtgccaac atagtcagcc
      661 agtatacact ccgctagcgc tacgtgactg gttcagggct gcgccccgaa acccgctaaa
      721 agctaatgac gcgcctgcgg cttgtccaac gcctcacggc accggattaa aatccgctcc
      781 cgttcaccgt ttctgactgc ctttcaccgt cgctggcgct tcatcgtttc tactgtgtct
      841 ggcagactgt gctgatttat tctgactgga gaacgttatg gccagactga caaacttgac
      901 gcctgcagag aaaaaatttc ttgatgatgc tgttgccgca gctgaaagag cgtcaggtaa
      961 aaagctaaat cagcctaacc ggcacatcgt cctgaacaga gcgcgtgcgc aaattgagtt
     1021 gcagcgttac gccgaccgcc agcgtgcatt acgtgaggat gagcggcagc agtccgattt
     1081 tgcctggtca cgtccgcgcg cgccgcgccg ctgattttgg cttttggcgg tttagtggtg
     1141 ctgacgctgc gaaatcacct gccattcacc tgcgtgcata gccatgcagt cgcgcagaaa
     1201 tcatcagggg cgtttttccg ggatactggt gaggaaaggt gctggaaacg gccctgatgc
     1261 agcaggattg cgctgagggc gcctgcgggg gtgcgggcaa gggatgttat gtttaatcgg
     1321 tctgaccgtc aggtacaaaa aaaagccctt agggggcttt tttttgctat gagttagcca
     1381 tattttcgtg cgaatttttc atcggaatcg catagataaa taataaactc aataaacgcg
     1441 atgatcgcgg gtatgaatgt ccagcaaaaa attagataca ggaacccctg tcctattttt
     1501 cctaagtaaa atttatgtgc gccaaatcca ccaaggaaga atgctaatag cgcggctgcg
     1561 attctacttt tttcacctga acctgaagag gcgtttgtgg ctccgcagtg cgggcatgac
     1621 tttgctgttt cgtgtatttc cttgccacat cctcggcagt aaaccattga actcattttt
     1681 tatcctcgag cttattttaa ttgggatcat aatatccgat gttttataac gatgtgtatc
     1741 ctatgtgctc ggattggata gatttccatt acggtgaagg atcttcttga gatcctttct
     1801 gtggcgtcgt aatctcttgc tctgtaaacg aaaaaaccgc cctgtaaggc ggtttttcga
     1861 aggttctcag agcagcaact ctttgaaccg tggtaactgg cttacgagga gcgcagt
//
