LOCUS       NZ_AP027804             3959 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.10.01CC plasmid p2017.10.01CC_4,
            complete sequence.
ACCESSION   NZ_AP027804
VERSION     NZ_AP027804.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562596
            Assembly: GCF_036504915.1
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  JOURNAL   Unpublished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 3959)
  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                   :: 39x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036504915.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:02:18
            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)                     :: 4,739
            CDSs (total)                      :: 4,619
            Genes (coding)                    :: 4,396
            CDSs (with protein)               :: 4,396
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 223
            CDSs (without protein)            :: 223
            Pseudo Genes (ambiguous residues) :: 0 of 223
            Pseudo Genes (frameshifted)       :: 50 of 223
            Pseudo Genes (incomplete)         :: 166 of 223
            Pseudo Genes (internal stop)      :: 30 of 223
            Pseudo Genes (multiple problems)  :: 23 of 223
            Pseudo Genes (short protein)      :: 4 of 223
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027804.1.
            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..3959
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.10.01CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.10.01CC_4"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            complement(83..196)
                     /locus_tag="AABJ86_RS23650"
     CDS             complement(83..196)
                     /locus_tag="AABJ86_RS23650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_072038508.1"
                     /translation="MHEPPVQSDCCVLSGNYRLESNPERHDKAPLAAATGI"
                     /name="replication initiation protein"
     gene            771..971
                     /locus_tag="AABJ86_RS23655"
     CDS             771..971
                     /locus_tag="AABJ86_RS23655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166333.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antitoxin VbhA family protein"
                     /protein_id="WP_038999327.1"
                     /translation="MARSSDPRQRTEGFRKAEASLRLEGMDPAGTPLYENIKERVISGD
                     ITYEQGRAEILAHYQKRANGH"
                     /name="antitoxin VbhA family protein"
     gene            complement(2078..2653)
                     /locus_tag="AABJ86_RS23660"
                     /old_locus_tag="VEE56_45400"
     CDS             complement(2078..2653)
                     /locus_tag="AABJ86_RS23660"
                     /old_locus_tag="VEE56_45400"
                     /inference="COORDINATES: protein motif:HMM:NF037889.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HEPN domain-containing protein"
                     /protein_id="WP_338384687.1"
                     /translation="MNNTESMKILRDCCDELNDIRKLVSDLDDSNKVVGYINKYAIIRA
                     TGSIEFAFKKIIADKVEHGCHDQIKNFIKRKIRESAHNPRLGTIESVLTDFDPKWQKKF
                     NEKIALENKIALDESLKKLVTERNSFAHGRDANIGIDEIIENYLNGQKVIAILDETVHF
                     LYDEPGAEEKLTTTKRHKRRRKKRKKRK"
                     /name="HEPN domain-containing protein"
     gene            complement(2660..3781)
                     /locus_tag="AABJ86_RS23665"
                     /old_locus_tag="VEE56_45410"
     CDS             complement(2660..3781)
                     /locus_tag="AABJ86_RS23665"
                     /old_locus_tag="VEE56_45410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012088418.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF262 domain-containing protein"
                     /protein_id="WP_038999331.1"
                     /translation="MFGHIIDTPLEENDDEYSDDDLFKISSWGADLSFRELISRYDDDE
                     LVKPELQRNYVWDKPEASRFIDSILLGLPIPSIFLAKTKDEKLLIIDGYQRFMTVRDYV
                     KGIFTKDNSIFKLSRTEKIHEKWRGKSFLELTDDERRKIRNTTIHAIIFMQQQPKTGDT
                     SLFQIFERINSSGRSLLPQEIRNCVYQGPINSLLFELNNNNKWRKLWGSERRDDRMRDL
                     EFILRFFALSDHYIQHSDNPPSRISLKKYLNQFMELANNESKISDFRHRFNSTIDYIFD
                     NFGLSAFHNYQKEQGKWIPAFSPTIYDSIMISTDEALRRGIKLPTPEDAKEAKKLLLEN
                     QEYQNLLYQETMRTPNIKARVSLMFEAVFHEDW"
                     /name="DUF262 domain-containing protein"
     Typing          complement(80..452)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="87.0"
                     /evalue="1.74e-171"
ORIGIN
        1 gcttggagga gcgcagtcac caaaacttgt tctttcagtt tagccttaac aggcgcataa
       61 cttcaagact aactcctcta aatcagatac cagtggctgc tgccagtggc gctttgtcgt
      121 gtctttccgg gttggactca agtcgatagt taccggataa gacgcagcag tcggactgaa
      181 cggggggttc gtgcatacag tccagcttgg agcgaactgc cttcccggaa ctgagtgtca
      241 ggcgtggaat gagaaaccgc ggccataaca gcggaatgac accggtaaac cgaatggcag
      301 gaacaggaga gcgcacgagg gagctaccag ggggaaacgc ctgggatctt tatagtcctg
      361 tcgggtttcg ccaccactga tttgagcgtc agattctgtg atgcttgtca ggggggcgaa
      421 gcctatggaa aaacggcttc gccgcggcct tttctgttcc cctctttctc cttccgctac
      481 ccccgaatct gtgggtaact ccaggtggac tgccggtacc gctcgccgca gccgaacggc
      541 cgagcgtagc gagtcagtga gcgaggaagc ggaagatctg cgatgcctga ttgggctcgt
      601 gtcgcgccgt accctctctt taccgccgga ttacacagtt tcctgcaata ctttccttcc
      661 ggtttacaca ttcgtctgca cgtataaaca acggcagagt acgggcagga tatgtaaagt
      721 aggcctactt taccgcctgc cttattcgct tacagctcaa aggaacatcg atggccaggt
      781 cctccgatcc acgacaacgt actgagggtt tccgcaaagc ggaagcgtcg ctgaggcttg
      841 aaggcatgga ccccgccgga acgccgctgt acgaaaatat caaggagcgg gttatttccg
      901 gggatatcac ttacgaacag ggacgggcag aaattctggc tcattaccag aagcgtgcga
      961 acggccactg acacggacag gaaactaggt accatcgctt cctcaaaaaa acaggcgtgg
     1021 cctctctccg gccaggcttt tcctgtattt gctatctgtt tgctacttgt ttgctacttg
     1081 tttgctactt gtttgctatc tatttgctac ttgtttgcta tctatttgct acttgtttgc
     1141 taccgctacc ctctgctgtg aaaagagtaa ggcacgttag cgatgtatac atcgccgcgc
     1201 cgcaagggtt ccccttccga atcccgttca tcactgcgtg ctgattatcc acgttaaatc
     1261 cgacctcctg cttggtagta aattctgcca tgcctgacgg cctggccaac gcctcacggt
     1321 cgcacagtaa actgtgcacc cgttcaccgt tatcggggga gttatgcgcc ggaaagcagg
     1381 ctttcatgcc agcatccacc ccaaatcgac cgccattcac ctgcgtgcat agccatgcag
     1441 ccgcgcagaa atcatcaggc gcgttttttc acgatatgga cagggaaaga tgccggaaat
     1501 aggcaggagg gcgcagaaat gccctgaggg cgtctgagat ggtgcacgca acggatgtta
     1561 tgttaaatat gggcgtttaa gaaagagagg tggttagcct ctcttctttg ggaaaactta
     1621 gattatttga acgctaatag cagctcgagg agcgctacga gtaagttcag cacagcaata
     1681 agaattacca tgatttctgc ctcaacggtt gccgaccgca ttcgggcagg aactttcccc
     1741 catatctccc ttgaataccg ctatgaggtt tgtgttcgta ggacacaagc acaaggtttc
     1801 ctgctgtgag agagaagagt taacagcacc acccgtacaa ctcatgcagt gagatctatt
     1861 taatagcaaa tacgcagtaa aatagatgtc gcattccacc aaggcattgt ccgaaaacaa
     1921 tattacttct atgccaaaaa aaaagccacc ctggtaaggc ggcttttatt tggcatagat
     1981 ctcaaaggaa accttatgct tgtgtcctat tggtatttta ctagaaaata ccaagtagtc
     2041 aaatttttac ataaagatgt tgtggttttt tgttttatca tttccttttt ttacgttttt
     2101 ttcttcttct tttatgccgt tttgtggttg ttaatttctc ttccgcccca ggttcatcgt
     2161 acaagaagtg tactgtttca tctaggattg cgattacttt ttgcccgttg aggtaatttt
     2221 caattatctc atcaattcca atgtttgcat ctcttccatg tgcaaagctg tttctttcgg
     2281 tcactagttt ttttaatgat tcgtccagtg caattttatt ctcaagcgca attttttcat
     2341 tgaatttttt ctgccatttt ggatcgaaat cggtaaggac gctttcaatt gtacctaatc
     2401 tcggattgtg tgcggactct cttatttttc tttttatgaa gttttttatt tgatcatggc
     2461 atccgtgctc aactttatct gctattattt ttttaaaagc aaactctatg ctgcctgtag
     2521 ctctgattat tgcatattta tttatgtaac caacaacttt gtttgagtca tcaaggtcag
     2581 aaactagttt tcttatatca tttaactcat cacagcagtc gcgcaatatc ttcattgact
     2641 cagtattgtt catttacatt taccagtctt catgaaaaac agcttcaaac ataagggaaa
     2701 ctcgtgcttt tatatttgga gttctcattg tttcttgata caaaaggttt tggtattctt
     2761 gattttcaag aagtaatttc tttgcttctt ttgcatcctc gggcgttggg agttttattc
     2821 ctctgcgtag cgcctcatct gtagatatca ttatgctgtc atatatagtt ggactgaaag
     2881 ctggaatcca ttttccttgt tctttttgat agttgtgaaa agcagataat ccaaaattat
     2941 caaaaatgta atctatagtt gaattaaaac gatgtctaaa atcggatatc ttcgattcgt
     3001 tgttagctaa ctccatgaat tgattgaggt atttttttaa ggatatgcga gatggcgggt
     3061 tgtcgctatg ttgtatgtaa tgatctgaaa gtgcaaagaa gcgtaatata aactctaaat
     3121 cacgcattcg atcatctcta cgttcagagc cccatagttt tctccattta ttgttattat
     3181 tcaattcgaa tagtaaggag ttaattggtc cttggtaaac gcagtttctt atttcttggg
     3241 ggaggagact cctgccgctt gagtttattc tttcaaatat ctggaataaa cttgtatctc
     3301 ctgttttagg ttgttgctgc atgaatatta tggcgtgaat ggtagtgttt cttattttcc
     3361 ttctttcatc atctgtaagt tctaagaagg attttcctct ccatttttca tgtatttttt
     3421 cagttcttga taacttgaaa atggaattat ctttggtaaa tattcctttt acataatccc
     3481 ttaccgtcat aaaacgctga taaccatcaa tgattaatag cttttcatct tttgtttttg
     3541 ctaggaatat acttgggata ggaaggccta atagtatgga atctataaat ctagatgcct
     3601 ctggtttatc ccagacgtaa tttctttgta gttcaggctt taccagttca tcatcgtcgt
     3661 atcttgagat taattctcta aagcttaaat cggcgcccca tgaagatatc ttaaataggt
     3721 cgtcatcact atattcatcg tcattttctt ctaatggagt gtcaatgata tggccaaaca
     3781 taatatatcc ttttttattg ggagacgtaa taaagatatc atgctttatt tattgcaaaa
     3841 actctacatt gacgagtggt ctgggtaagg gtatcttttt gtcagaaaag aaaaaaccgc
     3901 cttggcgggc ggtttttcta aggtttttcg agttggcgct cgttaaaccg aggtaactg
//
