LOCUS       NZ_AP027781             4508 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.03.04CC plasmid p2017.03.04CC_6,
            complete sequence.
ACCESSION   NZ_AP027781
VERSION     NZ_AP027781.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562590
            Assembly: GCF_036504195.1
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  JOURNAL   Unpublished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 4508)
  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                   :: 83x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036504195.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:15:21
            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)                     :: 4,598
            CDSs (total)                      :: 4,486
            Genes (coding)                    :: 4,081
            CDSs (with protein)               :: 4,081
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 405
            CDSs (without protein)            :: 405
            Pseudo Genes (ambiguous residues) :: 0 of 405
            Pseudo Genes (frameshifted)       :: 170 of 405
            Pseudo Genes (incomplete)         :: 225 of 405
            Pseudo Genes (internal stop)      :: 49 of 405
            Pseudo Genes (multiple problems)  :: 37 of 405
            Pseudo Genes (short protein)      :: 4 of 405
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027781.1.
            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..4508
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.03.04CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.03.04CC_6"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            join(4326..4508,1..141)
                     /locus_tag="AABJ94_RS22965"
     CDS             join(4326..4508,1..141)
                     /locus_tag="AABJ94_RS22965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_171765792.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            350..>784
                     /locus_tag="AABJ94_RS22970"
                     /pseudo=""
     CDS             350..>784
                     /locus_tag="AABJ94_RS22970"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            819..1310
                     /locus_tag="AABJ94_RS22975"
                     /old_locus_tag="VEE53_45980"
     CDS             819..1310
                     /locus_tag="AABJ94_RS22975"
                     /old_locus_tag="VEE53_45980"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_139246509.1"
                     /translation="MSSLLTLAKDLEQQSKAQKQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAILAHEQSMSEAMEKNRRSVLRTAGRTWLTILIVSALLIGTSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQTEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            1317..1532
                     /locus_tag="AABJ94_RS22980"
                     /old_locus_tag="VEE53_45990"
     CDS             1317..1532
                     /locus_tag="AABJ94_RS22980"
                     /old_locus_tag="VEE53_45990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_102882745.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWQSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2439..3101)
                     /locus_tag="AABJ94_RS22985"
     CDS             complement(2439..3101)
                     /locus_tag="AABJ94_RS22985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000430080.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNVR domain-containing protein"
                     /protein_id="WP_338390040.1"
                     /translation="MEKNSSDIDVIELFLFLKNKIMSIILFVVFSLILSSIFLLINKNK
                     ISVKYELNMITNSPGMIINCGDDFYCKANMIQSIIKSKSNSITSNIDEKGKKINLSWAG
                     DDRYKPSVAAEVNAIHQAIDDWYIQDYKTYKNIVNNQGGNYINGTETYAKIALLTKTNI
                     SGEKNFISINNETVNKKYQPALIMTLTLIMAIIFSSSYHIIKRSIFEYKNKLNRSFY"
                     /name="GNVR domain-containing protein"
     gene            complement(3529..3675)
                     /locus_tag="AABJ94_RS22990"
     CDS             complement(3529..3675)
                     /locus_tag="AABJ94_RS22990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /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_077890892.1"
                     /translation="MHEPPVQSDCCASSGNFQLDSNPERHDKAPLAAATGKRVYKRLLI
                     QSS"
                     /name="replication initiation protein"
     Typing          4038..4211
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          complement(3507..4114)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.817"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          132..1624
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.4"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cagatagccc gccgtgttaa cgccggcggc ggtaccggcc atgacagggt acagattgtg
       61 gcggcgctga tggccatcga tgccggcctt gagcggctgc ggcacgccgt tcttgagaaa
      121 ggaacggacg atgatcgtta aatttcatcc acgtggccgc ggcggtggcg ccgggccggt
      181 ggactatctg ctgggtaaag accggcagcg tgaaggcgcc agcgtcctgc aggggaagcc
      241 ggaagaagtc cgggagctga ttgacgcgtc gccttacgtg aagaaataca cctccggcgt
      301 cctgtcgttt gcggaggccg atctgcctcc cggccagcgg gaaaaactga tggccagctt
      361 cgagcgggtt ctgatgcccg gacttgataa agatcagtac agcattctgt gggtggagca
      421 cgaggacaag gggcgtctgg agctgaactt tctgatcccc aataccgagc tgctgactgg
      481 caggcggctc cagccgtact acgaccgcgc cgaccggccg cgtatcgatg cctggcagac
      541 catcgtgaac ggcagactgg ggctgcacga cccgaacgca ccggaaaacc gccgggcgct
      601 ggtcacgccg tccggactgc cgaaaacgaa gcaggaggcc gcagaatcca tcacgcgcgg
      661 actgttgaac cttgcttcgt ccggggagct gaaaacccgt caggacatca ctgaggcgct
      721 ggaacggtca ggttttgagg tggtgcgcac cacgaaaagc agtatcagca ttgccgaccc
      781 ggacgggggg cgaaacatcc gactgaaggg agccatctat gagcagtctt ttaacgctgg
      841 cgaaggactt agagcagcaa tcgaaagcgc agaagcagag taccggcgag atgctgaaag
      901 ccgcattcag cgagcacgag cagtctgtca gagcggaact gagcgcaagc gcgaggagaa
      961 tcagcgacgc catcctcgcc cacgagcaga gtatgagcga ggcgatggag aaaaaccggc
     1021 ggagcgtact gcggactgcc gggcggacat ggctcaccat cctgattgtg tcagcgctgc
     1081 tgatcggcac gagcgggagc atactgtggt ggcaggggca gcagataacc gacaattaca
     1141 cgcatcttcg tcagcaggaa gataccctgg cgaaaatgac cgcccggacg tggggagtgc
     1201 gctatcagga gagcagcgac ggccggaggt ttcttatcct gccgccgggg atgcaaaccg
     1261 aagccatccc ttacgacggg acgacatgga tccgcctgaa acaggagtag cggaagatga
     1321 cagagctgga aaagcagttg ctgagcgcat tagagcagct acagcaggac tactcgcaaa
     1381 ggctggacga atgggagagc gccttcgcgg aatggcagag catgtgtggg cttatgcaac
     1441 gggagaacgc ggtgctgaac gagcgcgtgt cggacttgag cacgcaggtg ctgagtttaa
     1501 gcgagcagct gcgccgcttg tccgggagct gaatgccacc gagttccggc agagggagaa
     1561 tgagtatcag aaaacactgg agctggagcg ccagccgcag aaaacctacc gcgggccgac
     1621 actttaaacc atccaggcag ctgacaaccc gcacgaagag gggctcttac ttctcccgct
     1681 aaataggttc gtgatcaaaa agatcacggc ctatacctgg ggggaattat gaaattgctt
     1741 aacgtcattg aagctgtact taactgcctg tatctggcgg ccgggctgtg ggactggctg
     1801 gagaagcatt tacctgtttt taaggcgtta gcgctgattt tagtgtgact ttacacgcca
     1861 tgcatctggc tgcatggtta tgcagtcggg taaaatttat ctgtcgcgat cggggtggtt
     1921 taccgggtgg gttgttgttg gttttggctg actgccgccc cgttcgcggc gaagctgtcc
     1981 ggggcggtgc gggcaacaga tgttatggta aattaaccgc atgatgactc attccgcata
     2041 tattattttt tagtaacata tggaccggat attggtaaat ggattcagca aaaaaaacgg
     2101 gcctgatgaa actgaaatgc agacttatat atccacggtt ctgaatcttc atgctaaagg
     2161 tgagttgcgg tatcagtcag ctgtagatgg tctaatgaaa ttatgtgtgt atcttaaaaa
     2221 tggagatctc gaggtggcca gtcggatgct tcatgggcat aaaaactgct gtaactggcc
     2281 cagtaccacg ggaaatcagt caggcaatgg aagggtgaga actagatctg actgccctta
     2341 gtcacttgag gttttatcgg gaggcccgct attagcgggc ttttctgcat ctggcgtgta
     2401 acggatatta ttagaatact gctattaacc gtcacaggct aataaaaaga cctgtttaac
     2461 ttatttttat attcaaaaat agatcttttg attatatgat acgaggagga aaaaataata
     2521 gccataatta atgttagagt cataattaaa gctggttgat actttttatt cactgtttca
     2581 ttattgattg aaataaagtt tttttctccg gaaatgtttg ttttagttaa taatgcaatt
     2641 tttgcatatg tttcagtgcc atttatatag ttgccgccct ggttgttaac tatgttttta
     2701 taagttttat aatcttggat gtaccagtca tcaatagctt gatggatagc gtttacttca
     2761 gcggcaacag agggtttgta acggtcatca ccagcccatg ataggtttat tttttttcct
     2821 ttttcatcga tatttgatgt tatagaattg cttttgcttt ttattattga ttgtatcata
     2881 ttcgctttgc aataaaagtc atccccacag ttaataatca tacccggcga attagtgatc
     2941 atatttaatt cgtactttac acttattttg tttttgttta ttaacaaaaa aatagatgat
     3001 aaaatcaatg aaaaaacaac aaacaaaata atactcatta ttttgttttt gagaaagaga
     3061 aataactcga tgacatcaat atcagatgaa tttttttcca tttttatata ccaataatat
     3121 ttattaaagt atgggttaaa taaataaata aaattaaaat ggctgtgatg aatatttttg
     3181 cggatttagt gtatttcatt ttaaaagcca atcgaataaa aaaacatttt acctactatt
     3241 taggtgtgag aaaactccta aaatcatttt tttttgtttc ttttttgttc gatcatgtct
     3301 atggagggag ttgttgtcag cctgtatcct ttcaacatat tttaagatct tcttgagatc
     3361 cttgcgttac agccgtaatc tcttgctctg aaaacgaaaa aaccacctgg ggaggtggtt
     3421 tttcgaaggt tcagtaagtt ggggaacttc tgaaccgtgg taacagggtg tacaagaccg
     3481 ctgccaccaa attcgtcctt ccagtttagc cgtagtttgg ctctgacttc aagaactctg
     3541 tatcagtaat ctcttgtaca ccctcttacc agtggctgct gccagtggcg ctttgtcgtg
     3601 cctttccggg ttggaatcaa gttgaaagtt accggaggag gcgcagcagt cggactgaac
     3661 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc ttcccggaac tgagtgtcag
     3721 gcgtggaatg agataaacgc ggccataaca gcggaatgac accggtaaac cgaaaggcag
     3781 gaacaggaga gcgcacgagg gagccgccag ggggaaacgc ctggtatctt tatagtcctg
     3841 tcgggtttcg ccaccactga tttgagcgtc agatttcgtg atgcttgtca ggggggcgga
     3901 gcctatggaa aaacggctcc gccgtggcct tatcgcttca ctgttaagtc tcttcctggc
     3961 atctcccagg aaatttccgc cccgccagta agccggtacc gctcgccgca gccgaacgac
     4021 cgagcgcagc gagtcagtga gcgaggaagc ggaatatatc ctgtatcgca tattctgctg
     4081 acgcccccgt gccgcctttt ttctccttcc acatgaagta cttcactgac atccgcatcc
     4141 gtgccaacat agtaagccag tatacactcc gctagcgctg cgtgactggt tcagggctgc
     4201 gccccgaaac ccgctaaaag ccactgacgc gcctgcggct tgtccaaccc cgcgccgacc
     4261 gggaaaggtt ttcccttccg tcccggtgtt atcaggagac tggtttgtca gagaaacgga
     4321 acaagatgct caccatgtgg gtgacggagg atgagcacag gcgattgctt gagcgctgcg
     4381 acggcaggca gctggcggcg tggatgcgtc agacctgcct cgatgagaag ccggcacgtg
     4441 ccggcagact tccgtcaata tcgccggcgc tgctgcggca gctcgccggc atgggcaata
     4501 acctgaac
//
