LOCUS       NZ_CP070904             2460 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain 99COLEC plasmid p99COLEC-2.
ACCESSION   NZ_CP070904
VERSION     NZ_CP070904.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17807537
            Assembly: GCF_017088405.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2460)
  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 2460)
  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                   :: 548x
            Sequencing Technology :: Illumina NovaSeq Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 07:19:19
            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)                     :: 4,790
            CDSs (total)                      :: 4,665
            Genes (coding)                    :: 4,468
            CDSs (with protein)               :: 4,468
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 17
            Pseudo Genes (total)              :: 197
            CDSs (without protein)            :: 197
            Pseudo Genes (ambiguous residues) :: 0 of 197
            Pseudo Genes (frameshifted)       :: 76 of 197
            Pseudo Genes (incomplete)         :: 119 of 197
            Pseudo Genes (internal stop)      :: 46 of 197
            Pseudo Genes (multiple problems)  :: 43 of 197
            Pseudo Genes (short protein)      :: 4 of 197
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070904.1.
            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..2460
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="99COLEC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p99COLEC-2"
                     /geo_loc_name="Singapore"
                     /collection_date="2019-02"
     gene            420..902
                     /locus_tag="JR895_RS23675"
                     /old_locus_tag="JR895_23675"
     CDS             420..902
                     /locus_tag="JR895_RS23675"
                     /old_locus_tag="JR895_23675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001565850.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_202974839.1"
                     /translation="MNTKKISKLERHTYMDESGEIKQDSKIETFSIPAEPPYVKLYIAD
                     IAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKNIIAALVD
                     KQIFLRAGRGELEANPFLFARGDWPSIYERRKKIELRISYDSNGRTVQTTVTDDER"
                     /name="hypothetical protein"
     gene            complement(1218..2207)
                     /gene="mobV"
                     /locus_tag="JR895_RS23680"
                     /old_locus_tag="JR895_23680"
     CDS             complement(1218..2207)
                     /gene="mobV"
                     /locus_tag="JR895_RS23680"
                     /old_locus_tag="JR895_23680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_251327717.1"
                     /translation="MPESGGNMANYAIMRCKKLTGMGSVASALQHCYRERETPNANAER
                     TPENYCSVSKSTDQAMGRVRELLPEKRRKDAVLAVEYVMTASPEWWKEATPRQQAEFFA
                     RSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMREDQS
                     TYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSHVSISPEALEPRVLRKGIFTK
                     DVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKRLQSVTEPFK
                     GLSREQMTEILMMAQRFKQQNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="mobV"
     Typing          complement(1222..2195)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.769"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 gaatatcgtt tttgaaagag caggaaccgc tcgccgcaag aacggattag ggagcggcat
       61 cgccgcgagt ctgtccgttc gaggaagcgg aatttccact ccccggacat agaaatccgt
      121 acgctccaga ctcaaaaaag ctcgtttttc gatgtttaaa aatggcgttt ttcagccttt
      181 attttccccc ttaatatata gatatagata cgggaacccg cgcacaccaa gggctagaga
      241 gaagaatcgt actcacctca agtactaatc gtacttacct caagtactaa tcgtacttac
      301 ctcaagtact aatcgtactc acctcaagta ctaatcgtac tttaggtaag gtacttgact
      361 accggcatct ttagtactta aatgtgagta ctaaaaacat gctgatacat ggggctagag
      421 tgaatacaaa aaagatttct aagcttgaac ggcatacata catggacgag agcggagaga
      481 ttaaacaaga ctctaagatc gagacttttt ctatcccggc tgaaccgccc tacgtcaagc
      541 tttacatcgc agacattgcg atgattcatg gtttgtcaaa atctcaaaat gatgtgcttt
      601 tgcagttggc aatgctgatt ggatgggatg gctttgtatc tgtatcaaaa actagatttg
      661 agaagaccat acaacctagg gttcatattg aatatcagac gtttaaaaac ataatcgctg
      721 cccttgttga taaacaaatc tttctccggg cagggcgggg agagcttgaa gccaatccgt
      781 ttctttttgc tcggggagac tggccttcaa tttacgaaag aagaaaaaaa atagagttaa
      841 gaatcagtta tgattccaat ggaaggacag tacaaacaac ggtaacggat gatgaacgct
      901 gaagataagc tattcaaaaa agtagataga ttaatgctgc atgactctct aaaaaagaat
      961 gaggttttga ctgtttggga gcgtactttt ttaagtagta catacagcat atatcgcaga
     1021 acaagcggta atgaattttc aactaaggga ttgtcaccaa aacaaaaaag caccgctttt
     1081 tctattttga aaaaatacaa ttaccatctg atggattagc tggactcagc gttatacagg
     1141 gcggcagaac ctgatctctg gaatgccgca aatgacgtca ctttgcggcg ttagccctat
     1201 cctgcatcgc atcaaaacta acgctccata ccacccatgc cacgcgatcg cgtctgtcgc
     1261 tgtttttcac gttcaatacg ctgctgtttt tccttttcct ggttttgctg cttaaaccgc
     1321 tgagccatca tcaggatttc ggtcatctgc tctctggaaa gccccttaaa aggctctgtg
     1381 acgctctgta ggcgtttctg ctgcgcatcc atagtcttct gtagctcacg cgctcttttt
     1441 gcgttctggg cgctctgaga ggccatagcg atggttcctg caaagccatc gttcactgcg
     1501 tggcttagac gtttggctat ggctgcctga tcttccacgt ctttggtgaa aatgcccttc
     1561 cgcaatacac gcggctccag cgcctccggc gagatcgata catggctacg ggtgccacgg
     1621 tttatcgatt cgtagtagtg ctgaactgtc tgatgcgtgg cgcggcttcc ctcgatgccg
     1681 cgctcaagac ccagtttttt tactgattca gcgtaggtgc tctgatcttc acgcatcttt
     1741 gaccgcccgc caataaactc tttcgcggac agccgtccat cctgcgtcaa tggcaccacg
     1801 aacgcagaca ggtgcggggt ggcctcgtcc cggtgaacca ccgccgccac aacacgatcc
     1861 ttcccgtatt tcttctccag ccattgctca gagcgggcga aaaactccgc ctgctgccgt
     1921 ggtgtggcct ctttccacca ctcagggctt gctgtcataa cgtattcaac ggccagtacc
     1981 gcatctttac ggcgtttttc cggcagcagc tcccgcacac gccccattgc ctgatccgtt
     2041 gatttggaca cagagcagta gttttctggt gtccgttcag cgttagcgtt cggcgtctca
     2101 cgctctcggt agcagtgctg caacgcgctg gccacgcttc ccattcccgt cagctttttg
     2161 cagcgcatta tcgcgtagtt cgccatgttc ccccctgatt ccggcattca ttcagccagg
     2221 cgggggagcg cattgcgata cctccggcgg gccactatca agatgatagt gtactcacta
     2281 gactttgctt cgcaaaatcg ttcgggaagc tgcgcttcca aaggtcaaaa tcaacggcgg
     2341 tctggcaggt ggaaggcgtc gctccgcgtc acctcccacc actgccaagc ctgttttatc
     2401 cggtgagtcg tcaagggtaa atggcactcg ctacgctcgc ccttgacgaa atcaggcaat
//
