LOCUS       NZ_AP027863             3830 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017-19-1CC plasmid p2017-19-1CC_9, complete
            sequence.
ACCESSION   NZ_AP027863
VERSION     NZ_AP027863.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562630
            Assembly: GCF_036506655.1
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  JOURNAL   Unpublished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 3830)
  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                   :: 523x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036506655.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:01:59
            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)                     :: 4,921
            CDSs (total)                      :: 4,796
            Genes (coding)                    :: 4,564
            CDSs (with protein)               :: 4,564
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 232
            CDSs (without protein)            :: 232
            Pseudo Genes (ambiguous residues) :: 0 of 232
            Pseudo Genes (frameshifted)       :: 61 of 232
            Pseudo Genes (incomplete)         :: 163 of 232
            Pseudo Genes (internal stop)      :: 47 of 232
            Pseudo Genes (multiple problems)  :: 36 of 232
            Pseudo Genes (short protein)      :: 4 of 232
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027863.1.
            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..3830
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017-19-1CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017-19-1CC_9"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            complement(join(2234..3830,1..308))
                     /locus_tag="AABJ85_RS24575"
                     /old_locus_tag="VEE77_47390"
     CDS             complement(join(2234..3830,1..308))
                     /locus_tag="AABJ85_RS24575"
                     /old_locus_tag="VEE77_47390"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="methyl-accepting chemotaxis protein"
                     /protein_id="WP_061202242.1"
                     /translation="MSWVYRISMQMKLFIALFPLLLALVWFAGSGIVSRINTEQQMNTI
                     GQLTTLARSAGDVVHQLQSERGMSAGFIGARGQKFRDDLAAQRQLTDKVLATFKRLLTD
                     TNKDLLQGNIAAPLKTFNESIQFLDSTRTAISELTIDSPKASQFYTQTISDVLKFVGGM
                     GHLSTSGSMVNELAAYYSLLNLKEQAGVERALLSNIFSMDRFDDGQFSMFSDVVGQQDA
                     WLTAARSFSTPVQAAELDKSLQSAEATRALELRETAFNKAAEGGFGVNPTDWFNLQTQR
                     IETLQKVENRAVDALQEHAALLAHNARVDWQSFLVISLVALLIAIAFAVMVARSIQQQL
                     NGTLKTIAEMDGDLTRRLDVPGSDELSALNRAYNQAIENIQHIVQEIKSGAVVLRSASS
                     DIAAGNQDLAQRTDEQAASIVETAASMEQISTAITQTADNASEAERLIHSMERDVLEAN
                     RVSNEASQSMAEIRSSSEQISQIVASIDEISFQTNLLALNAAVEAARAGELGKGFAVVA
                     TEVRNLSQRCAREASQIRELINQNMDKIGEGVARVTASGTALKAAAENTGRMKQYVSDI
                     ARAANEQSLGVSQVHQALNQLEQVTQQNAALVSQAASASQMLDGQSEAMSTLVDRFIV"
                     /name="methyl-accepting chemotaxis protein"
     gene            complement(614..763)
                     /locus_tag="AABJ85_RS24580"
     CDS             complement(614..763)
                     /locus_tag="AABJ85_RS24580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001333247.1"
                     /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_077464408.1"
                     /translation="MHEPPVQSDCCAFSGNYRLESNPERHEKSPLAAATGKQDVREMYR
                     EFLK"
                     /name="replication initiation protein"
     gene            1442..1708
                     /locus_tag="AABJ85_RS24585"
                     /old_locus_tag="VEE77_47370"
     CDS             1442..1708
                     /locus_tag="AABJ85_RS24585"
                     /old_locus_tag="VEE77_47370"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_213069224.1"
                     /translation="MKRSQLTLIDGCFMFGFSPGELMNLCPDERLLFVRMISAMLRRSG
                     GDAGAVMFEAYRHIVSDTNQARRSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(1756..1944)
                     /locus_tag="AABJ85_RS24590"
                     /old_locus_tag="VEE77_47380"
     CDS             complement(1756..1944)
                     /locus_tag="AABJ85_RS24590"
                     /old_locus_tag="VEE77_47380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          1126..1298
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.379"
                     /coverage="100.0"
                     /evalue="9.47e-61"
     Typing          complement(605..1201)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.211"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gtcagcaacc gcttaaatgt tgccagcacc ttgtcggtta actgccgctg ggcagctaag
       61 tcatcgcgaa acttttggcc gcgcgcgccg ataaatccag cgctcattcc acgttcgctc
      121 tggagttgat gcaccacatc acccgcgctg cgggcgagcg tggtgagctg tccaatggtg
      181 ttcatctgct gttcggtatt gatacggctg acaatacccg aaccggcgaa ccagaccaag
      241 gcaagcagta gcgggaataa tgcaataaac aacttcattt gcattgaaat acgataaacc
      301 catgacatat cgatactttc cttactttct tgagggatcg caggagtatc ggtagataca
      361 tgcataaact ttatagttta ttgttggggg aacgggcacc acattcggca gtggcgctgg
      421 tagcaatcca taaaggatct tcttgagatc ctttgacgat cgtcgtaatc tcttgctctg
      481 taaacgaaaa aaccaccctt gcaggtggtt tttcgaaggt tagataatcc tggcagattc
      541 tctaaccgtg gtaacagtct tgtgcgagac atgtcaccaa atttgtcctt ctagtgtagc
      601 ctcagtcagg ccactacttc aagaactctc gatacatctc tcgcacatcc tgtttaccag
      661 tggccgctgc cagtggcgat ttttcgtgtc tttccgggtt ggactcaaga cgatagttac
      721 cggaaaaggc gcagcagtcg gactgaacgg ggggttcgtg catacagtcc agcttggagc
      781 gaactgcctt cccggaactg agtgtcaggc gtggaatgag ataaacgcgg ccataacagc
      841 ggaatgacac cggtaaaccg aaaggcagga acaggagagc gcacgaggga gctaccaggg
      901 ggaaacgcct gggatcttta tagtcctgtc gggtttcgcc gccactgatt tgagcgtcag
      961 atttcgtgat gcttgtcagg ggggcggagc ctatggaaaa acggcttcgc cgcggcctta
     1021 ccgtttccct gttaagtttc ttcctggcat ctcccaggaa atttccgccc cattcgtaat
     1081 cccgcaccgc tcgccgcagc cgaacgaccg agcgcagcga gtcagtgagc gaggaagcgg
     1141 aatatctcct gtctcatata ttccgcttac gctctgctgc tgcattttcc tcctgccaca
     1201 tgaagcactt cactgattcc cgcacccgtg cctacataat aagccagtat acactccgct
     1261 agcgctacgt gactggttca gggctgcgcc ccgacacccg ctaaaagcac tgacgcgcct
     1321 gcggcttgcc caaccccgcg ccgtccggga aagaatttcc cgatcgaccc gacgtttctg
     1381 tttacctgtg atgttaacgt ttggatcttt ttcccgggtt tacctatttt aatgaagcgt
     1441 aatgaagcgt tcacagctga cgttaataga tgggtgcttc atgtttggtt tttcaccagg
     1501 agaacttatg aacctttgcc ccgatgaacg tctgctcttt gtgcggatga tttccgctat
     1561 gcttcgccgt tcgggcggtg atgcgggtgc tgttatgttt gaggcgtatc gccatattgt
     1621 gtccgatacc aatcaagctc gtcgttcctg catgctcgac ctgctcgaaa gcgtcaggca
     1681 tgactatgta cacggtggat atacatagtt gccctggata cgcttttcgt ctaagtgagc
     1741 gttcttttcg tctctttatt cgccgtcctg tataccgaag cgtgcgctca gcttctgata
     1801 aagcgcttct gcctgttcgt gcattcgctc acagtcggct gcctcgtcat caagatcgag
     1861 cacgtcgagt ttttcgagca gcagcagcga ctgcgcccgg ataaattttg ccatgttcag
     1921 tgcggctgat tcctgttttg tcatacggct ttttcccggt tttatggtga tcgcagactg
     1981 aaatcttact tcattcactt gagtgcatag ccatgcaggt acgcagaaat catcaggggc
     2041 gttttttctc gatatgggca cagaaaggtg tatgtttcag gtcggagtcc tcagaaacgc
     2101 tctcagagcc tctcaggcgg tgcacgcaac agatgttatg gtaaatccta gttatttgca
     2161 ggcataaaaa agccgccttt taggcggttt tttctgattg taagttatca agaccggatg
     2221 ctgaacggca gtatcagaca ataaagcgat cgaccagcgt ggacatcgct tcagactggc
     2281 cgtccagcat ctggctggcg ctcgccgcct gagagaccag cgctgcgttt tgctgagtga
     2341 cctgctccag ctgattcagt gcctgatgca cctgcgacac gccaagcgac tgctcattcg
     2401 ccgcacgggc aatatcgctc acgtactgtt tcatccgccc ggtattttcc gccgctgctt
     2461 tcagcgcggt gccggacgcg gtgactcgtg ctaccccttc gccaatctta tccatattct
     2521 ggttaatcag ctcacggatc tgactggcct ctcgtgcaca gcgctgggaa aggttacgca
     2581 cctccgtcgc cactaccgca aagcctttgc caagctcacc ggcacgtgcc gcttcaacgg
     2641 cggcgttaag cgccagcaag ttggtctgga aagaaatctc atcaattgac gcaacaatct
     2701 gggaaatctg ctcgctggaa gaacgaattt ccgccatgct ctgactggcc tcgttagaga
     2761 cgcgattagc ttccagtacg tcccgctcca tcgaatgtat cagacgctcc gcctcgctgg
     2821 cgttatcggc ggtctgggtg atcgcagtag aaatctgctc catgctggcg gccgtttcca
     2881 caatcgatgc cgcctgttca tccgtacgct gggccagatc ctgattaccg gcagcgatat
     2941 cactactggc gctacgcaac accaccgcac cggacttaat ttcttgcacg atatgctgaa
     3001 tattctcaat cgcttggtta taggcacggt tcagggctga gagctcgtcg ctgccgggga
     3061 cgtcaagacg acgtgtcagg tcgccgtcca tctctgcgat ggttttcagc gtaccgttca
     3121 gttgctgctg gatactgcgt gccaccatca ccgcaaaggc gatagcaatc agtagggcaa
     3181 ccaggctgat taccaggaag gactgccagt cgacacgggc attgtgggca agcagcgcag
     3241 catgttcctg caaggcatcc accgcgcgat tttccacctt ttgcagcgtt tcaatacgct
     3301 gggtctgaag gttaaaccag tcagtcgggt tgactccaaa tccgccttcg gcggctttat
     3361 taaaagccgt ctcccgcagt tcaagagcac gagttgcttc agcggactga agagatttgt
     3421 ccagctcagc cgcctgcaca ggtgtgctaa agctgcgagc tgccgtcagc caggcatcct
     3481 gctggcctac cacatcgcta aacatgctga actggccgtc gtcaaagcga tccatcgaga
     3541 agatattgga cagcagcgca cgttctacac cagcctgctc cttcaaattc aagagactat
     3601 aataagccgc cagttcgttc accatcgagc ctgaggtgct taaatgcccc atcccgccga
     3661 caaacttcag cacgtcagag atggtttggg tatagaactg actcgctttt ggtgaatcga
     3721 tagttaattc gctgatggcg gtacgggttg agtcgagaaa ctgaatactt tcattaaacg
     3781 ttttcagggg ggcggcaata tttccctgga gtaaatcctt attcgtatcg
//
