LOCUS       NZ_AP027798             5728 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.06.05CC plasmid p2017.06.05CC_8,
            complete sequence.
ACCESSION   NZ_AP027798
VERSION     NZ_AP027798.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562594
            Assembly: GCF_036504765.1
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  JOURNAL   Unpublished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 5728)
  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                   :: 183x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036504765.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:25:05
            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)                     :: 5,191
            CDSs (total)                      :: 5,071
            Genes (coding)                    :: 4,814
            CDSs (with protein)               :: 4,814
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 73 of 257
            Pseudo Genes (incomplete)         :: 187 of 257
            Pseudo Genes (internal stop)      :: 44 of 257
            Pseudo Genes (multiple problems)  :: 45 of 257
            Pseudo Genes (short protein)      :: 2 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027798.1.
            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..5728
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.06.05CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.06.05CC_8"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            join(5073..5728,1..268)
                     /locus_tag="AABK28_RS25910"
     CDS             join(5073..5728,1..268)
                     /locus_tag="AABK28_RS25910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016237866.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_062859337.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLSASARR
                     SIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSPAE
                     CRAIGKSIAKYTYRKFSPEGFSAVQAARGRKGGNANSSENQAIKGQKSKRVAVATSART
                     LKPWVTLGISRATYYRKLKCDPDLAK"
                     /name="replication initiation protein"
     gene            complement(475..921)
                     /locus_tag="AABK28_RS25915"
                     /old_locus_tag="VEE55_49330"
     CDS             complement(475..921)
                     /locus_tag="AABK28_RS25915"
                     /old_locus_tag="VEE55_49330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_000184723.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWERRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     gene            1093..2187
                     /locus_tag="AABK28_RS25920"
                     /old_locus_tag="VEE55_49340"
     CDS             1093..2187
                     /locus_tag="AABK28_RS25920"
                     /old_locus_tag="VEE55_49340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016230929.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_000179381.1"
                     /translation="MASYHCTVKTGAKGVALKHADYISRSGEYKNYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKARF
                     GETQQERKSALVALRSHWADVQNEHLARHGHQSRVDHRSLKEQGIKRTPEVHLGPVRVA
                     VMNADQVCAILAWRNAEREKLEAEKERDSIIDLKTTLKEALAERDNMPPTLDELGAELK
                     AFVESSFDELNEVMQLNSLIDGALDTMMKQFQVEEERKLQQERLIQAARDEAEKQRELE
                     RERVRRRAYSSPAPSRSRDYGMSR"
                     /name="MobA/MobL family protein"
     gene            2209..2925
                     /locus_tag="AABK28_RS25925"
                     /old_locus_tag="VEE55_49350"
     CDS             2209..2925
                     /locus_tag="AABK28_RS25925"
                     /old_locus_tag="VEE55_49350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235968.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001175446.1"
                     /translation="MQLDEHSRKIAALVAYNEKQIKEINRIITLLNERVNDLNTFTDTL
                     EREGKVVSGISYSLRDSVSHVDFYLNKGMEEVSCKLQKSVSDTLTSLLREKLSFTLNDV
                     RQEWTDFEEQTSKEIKESLKQTTRDAEVATGIIRKTMEKYTVTRIVEKVLVLLVLFLLL
                     MIAPSFYAEYLKMNIGSLMEEQKKHESMLKEWKEKAPLAEFSKCGEYRDVCVLVDDKSG
                     YYSNEQTPNKKYAILK"
                     /name="hypothetical protein"
     gene            complement(2983..3555)
                     /locus_tag="AABK28_RS25930"
                     /old_locus_tag="VEE55_49360"
     CDS             complement(2983..3555)
                     /locus_tag="AABK28_RS25930"
                     /old_locus_tag="VEE55_49360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001681717.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LysE family translocator"
                     /protein_id="WP_001681717.1"
                     /translation="MEYSTLFSFAIVTLSQTISIGPGVALVINNAFSQGLKSSIKTSIY
                     IRAGEAIVMVISLFTLSSTSSIEQHFYIIKILGGSYLIYIGVMGLINKKNKKSKVQKPL
                     LIPLLNPKAYLFFAALIPAFIDDNTNIALNFFILGVLFIFISFLTDIIYIAISLTIRDK
                     LTPSFSRYISICSSIFILGTGIYFILT"
                     /name="LysE family translocator"
     gene            complement(3562..4512)
                     /locus_tag="AABK28_RS25935"
                     /old_locus_tag="VEE55_49370"
     CDS             complement(3562..4512)
                     /locus_tag="AABK28_RS25935"
                     /old_locus_tag="VEE55_49370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000997639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000997639.1"
                     /translation="MNDFINECISAPRINGMEEFFSSTASGEKHKPFRLVEIDERLFHS
                     YDYIKFGKNLTKNSGPFVNHYFCSIPYSKEEECRLGTTVIKYATTLNKKLNAWCLGMAE
                     GAMARTISELSKGNIQTLTTSPTKENEHAFFNYGSSENAYFICTPFFLLEEKLKKSNLN
                     QFNQGFDIIIEDTTFQMYSPNRSGQINHVKRLLNNDGIFIFTEKHSSEHDEYQKREIQK
                     DYSFKQRYFSKDEINTKKEIVLNTMNLNEVSVDDMISAIKQHFKYASIYWNSGNFYSIA
                     ASNSLKHISTFINLLPKAAIPMEYVYEKLPRNISW"
                     /name="hypothetical protein"
     Typing          5074..5728
                     /name="rep_cluster_2150"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.208"
                     /coverage="86.0"
                     /evalue="8.07e-168"
     Typing          1094..2184
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.055"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tccggctgaa tgtcgggcta ttggcaagag tattgcgaaa tacacctacc gcaaattctc
       61 tcctgaaggc ttttccgcag tacaggctgc tcgaggtcgt aagggcggta atgcaaattc
      121 atcagaaaat caggctatta aaggtcagaa atcaaagcgt gtagccgttg ccacatcggc
      181 acgaactctg aagccgtggg tgacgttagg gatcagtcgt gccacatact atcgaaaact
      241 aaaatgtgat ccagatctcg caaaatgaga ccagataaca agccttatca gataacagcg
      301 cctgtaggcg tttttttgag cgggtaggtt tggggtgatt tcccgtgttt cgtttggcaa
      361 tggttttagc gtctgtgtgt gagtggtggt tgtgctcgcc gcagtctcaa tgaccgagcg
      421 tagcgagcga atgagcgagg aagcaccagg gaacgggaac gagaacgaag gcacttacgc
      481 actgtctttg gttagtagct ccttcccgcg tctttcccat tcctgccatt ttggatggtt
      541 gcgcggtagc tctgcgattc ctgcgagtgc gcctaccagt tcggcagcac taaactttgg
      601 ttttccggtt ttgctgtcca ccagtcctgc cacaatcatg aggcctgcgg ccttgtagag
      661 ttcatgatcc cgcgcctttc gttccgccct tgcggctgcc ttccgttctg ccgctatgat
      721 tgccgttacc ctggcttttg ctgcggctgc tttctctgcg gttttttctg cccgtatcag
      781 tgcggacaac gttttttcat ccgtcgttgt tcggtttttt ttctctgcca gtaacacaag
      841 taatctctgc tgctctgacg gtgatttcag tccgttgatg taggcaattt ttgcacttaa
      901 ccactcttca cgatttgtca ttcttacctc tgcacttttg ccgttaatgt gagttgttat
      961 tgtgcataat atcaccttgt ctgcctgcgt gtgagaccgt aaaatcatcc ctgattaatt
     1021 cagggatgcg cacttagacg tttctctcct tcgtcgagaa acagtgcgct cctgcggagg
     1081 gcttaacggc agatggcaag ctaccattgc acagttaaaa ctggagcaaa aggcgtagcc
     1141 ttaaaacatg ctgattacat ttccagatcc ggcgaatata aaaactataa atcgcgggag
     1201 gatctggaat tttcttcatc cggtaacatg ccatcatggg cgaagaaaaa tcccgcagaa
     1261 ctgtggaaag ctgctgatga atttgaacga aaaaacggga cggcataccg tgaaattgag
     1321 atcgcattac cgcgagaact gacacgtgaa caacggatag agcttgttga agatttcgtg
     1381 caaaaggaac ttggtgatcg ccatgcctat cagtacgcga tccacaatcc accaggtgca
     1441 attgacggga aggaacagcc acacgcgcat atcatgtttt gcgaacggat taatgatggt
     1501 attgaacgcg atccgcagca gttttttaaa cgtgccaaca gcaaatcacc agagcggggg
     1561 ggcgcaaaaa aggcacgctt tggcgagaca caacaagagc gaaaatcagc cctggttgcg
     1621 ctacgctctc actgggctga tgtgcagaat gaacaccttg cgcgacacgg ccaccagtcg
     1681 cgcgttgatc atcgttcgct gaaagaacag ggtatcaagc gtacgccgga ggtgcatctt
     1741 ggtcccgttc gtgttgctgt tatgaacgct gatcaggttt gtgcaattct ggcatggaga
     1801 aatgcggaac gggagaagct ggaggccgag aaggaacggg acagcatcat tgaccttaaa
     1861 acgaccttga aggaagcgtt agctgaacgg gataacatgc caccaaccct ggatgagctt
     1921 ggggcagaat tgaaagcgtt tgttgaaagc tcgtttgatg aactcaatga ggtaatgcag
     1981 cttaattcat tgattgacgg tgcgctggac acaatgatga agcaattcca ggtggaagag
     2041 gagcggaagt tgcaacagga acgactaatt caggctgcgc gagatgaagc cgaaaagcaa
     2101 agagagctgg agagggaaag agtgcgccgg cgtgcgtatt cttcaccagc accatcacgt
     2161 tcacgcgatt atggtatgag ccgttaagca ctgggggttt tttattttat gcaattggat
     2221 gaacattcaa gaaaaattgc tgcccttgtt gcgtataatg aaaagcaaat aaaagaaata
     2281 aacaggataa ttactctgct taatgaaaga gtgaatgact taaatacctt tacagatact
     2341 cttgaacgtg aaggtaaagt tgtatctgga atttcttatt ccttgaggga tagtgtgtct
     2401 catgttgatt tttatcttaa taaaggaatg gaagaagtat cctgtaaatt acagaaatct
     2461 gtctcagaca cactaacatc attactccgt gaaaaattat ctttcacact taatgatgta
     2521 aggcaagagt ggactgattt tgaagagcaa acaagtaaag agataaagga atcattaaag
     2581 cagacgacca gagatgctga agttgcgaca ggtataatta gaaaaacaat ggagaagtat
     2641 acagtaacaa ggatagtcga aaaggtactt gtgttgcttg tattattttt attgttaatg
     2701 attgctccta gtttttatgc tgaatatctc aaaatgaata tcggttctct aatggaagaa
     2761 cagaaaaaac atgaatctat gttaaaagag tggaaggaaa aagcaccatt ggcagagttc
     2821 tctaagtgtg gagagtatag ggacgtatgc gtgttagttg atgataaaag cggatattat
     2881 tccaatgaac aaaccccaaa taaaaaatat gccatactga aatagtgtta agtaactcat
     2941 gccgtcttat gactaaggct gcatgagtat aaaaacggcg tttcacgtca agataaaata
     3001 aatacctgta cctaatataa aaatggagct acatatactt atgtaccttg agaatgacgg
     3061 agttaattta tcccttatcg tcaagctaat agctatgtaa ataatatctg tcaggaatga
     3121 tataaatata aacaaaacac ccaatataaa gaaatttaat gcgatatttg tattatcatc
     3181 tataaatgct ggtattaatg ccgcaaagaa taaatacgcc tttgggttta ataatggtat
     3241 aagtaaaggt ttttgtactt tgcttttttt gtttttttta ttaattaaac ccattacccc
     3301 tatgtatatt aaatagcttc cacctaagat ctttataatg taaaagtgtt gttctatgct
     3361 ggatgttgaa gataacgtga aaagagatat taccatgacg attgcttcgc cagctcttat
     3421 gtatatactt gtttttattg atgatttaag tccttgtgaa aaggcgttgt ttataaccaa
     3481 tgcaacacca ggtcctattg atatagtttg agataaagtt acgatagcaa atgaaaataa
     3541 tgttgaatat tccatattta cttaccatga tatatttcgc gggagctttt catatacata
     3601 ttccatagga attgcggctt tcggtaataa atttataaat gtggatatgt gctttagtga
     3661 attgctggcg gcgattgagt aaaaatttcc gctattccaa tatattgatg cgtatttaaa
     3721 atgttgttta attgcggaaa tcatatcatc aacactaact tcatttaaat tcattgtgtt
     3781 gagtacgatt tccttttttg tgttaatctc atctttcgag aaataccttt gtttgaatga
     3841 gtaatctttt tggatttctc ttttttgata ttcatcatgt tctgagctat gtttttctgt
     3901 aaatatgaaa ataccatcat tatttaatag tctttttaca tggtttattt gaccagatct
     3961 gtttggtgag tacatttgaa atgtggtatc ttctattata atatcgaacc cttgattaaa
     4021 ttggttaagg tttgattttt tcagtttttc ttccaacagg aaaaaaggag tgcaaataaa
     4081 ataagcattt tcacttgagc cataattaaa aaatgcatgt tcattttctt ttgttggact
     4141 ggttgttaat gtttgtatgt ttccttttga taattctgaa atggttcttg ccattgctcc
     4201 ctcagccata ccaagacacc atgcgtttaa ttttttattt agtgttgttg cgtattttat
     4261 tactgttgtt cctaatctgc attcttcttc cttgctgtat ggtatgctgc aaaaataatg
     4321 attaacgaaa gggccgctgt tttttgtgag gtttttgcca aacttaatgt aatcataaga
     4381 atgaaaaagc cgctcatcta tttctactag tctaaaaggt ttgtgttttt cccctgatgc
     4441 agttgatgag aaaaattctt ccatgccatt tattctcgga gcggatatac attcatttat
     4501 aaagtcattc atttttctat cctctggtct gagtttttgc atttgttgtt atgactattt
     4561 aatgctaatt atcagataac cttttttaca cgccataaac acgattatga ttgatgtttt
     4621 atattgtcga tatttcgttg tccagactgt atatgtttgg aaatttgttt gcatacgggt
     4681 tcgttccgtt tagctggctt tttggatgag aaagtttgct gttttgaccc gttcgcgctt
     4741 ctgaaggggg gaaaccgatc atgaatcgct tttgtgcata gttatgcagg cccataaaaa
     4801 cgattctgac gcgtttttat ggtttaccct agtgttttct tgtctttttg agttttttgc
     4861 gtcagaaagc gattgagagc gttttagagg gtacgtacaa caggagttat ggtaaatgga
     4921 tcgggtttgc gggaagactc gacaggtttt gtcgttgggg gtagtgtaag cgactgaaaa
     4981 acaaacgccc ctgaaattcg tgcctctccg ccaagattgt cacgagaata caggggcgag
     5041 gtcggtcgat aacctggaag gaatcgtaac acatgagcgc cgcgcttcaa tacttcgaag
     5101 aaaatttacc tcaccgcccc tatcacacag atgatctcgc tttcggcctt cgcatctccg
     5161 gcaaagggcg tgcgcttctt gcgcggtaca tccagcagaa ccagcctcat gcgcagttct
     5221 ggctggtttt tgacgttgac cgcgaggggg cagcgattga ctggagcgac cggaacgccc
     5281 ccgcgccgaa catcaccgtt aaaaatcctg tgaacggaca cgctcacctg ctctatgcac
     5341 tcaatatcgc cgtgagaacc gcgcctgatg cgtcggttaa ggcgctgaaa tatgccgcag
     5401 cggttgaacg ttcgctgtgt gagaaacttt gtgctgatgt gaactacagc ggactgattt
     5461 gcaaaaatcc gttccacctg gaatggcagg tgatggagtg gcgcgaggaa gcctataccc
     5521 tcgatgaact ggctgattat ttgagcgcct cagcgcgtcg tagcatcgat aaacattacg
     5581 ggatggggcg aaactgccac ctgttcgaaa tgacgcgcaa atgggcttac agggcgattc
     5641 gtcagggctg gccagcattc tcacagtggc ttgatgccgt gattcagcgt gtcgaaatgt
     5701 acaacgcatc gcttcccgtt ccgctttc
//
