LOCUS       NZ_AP027768             4145 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017-02-2CC plasmid p2017-02-2CC_4, complete
            sequence.
ACCESSION   NZ_AP027768
VERSION     NZ_AP027768.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562628
            Assembly: GCF_036503815.1
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  JOURNAL   Unpublished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 4145)
  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                   :: 703x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036503815.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:06:52
            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)                     :: 4,994
            CDSs (total)                      :: 4,870
            Genes (coding)                    :: 4,726
            CDSs (with protein)               :: 4,726
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 144
            CDSs (without protein)            :: 144
            Pseudo Genes (ambiguous residues) :: 0 of 144
            Pseudo Genes (frameshifted)       :: 63 of 144
            Pseudo Genes (incomplete)         :: 80 of 144
            Pseudo Genes (internal stop)      :: 27 of 144
            Pseudo Genes (multiple problems)  :: 26 of 144
            Pseudo Genes (short protein)      :: 3 of 144
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027768.1.
            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..4145
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017-02-2CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017-02-2CC_4"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            406..519
                     /locus_tag="AABJ99_RS24945"
     CDS             406..519
                     /locus_tag="AABJ99_RS24945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_071778980.1"
                     /translation="MHEPPVQSDRCVFSGNYRLESKPERHDKAPLAAATGN"
                     /name="replication initiation protein"
     gene            827..>958
                     /locus_tag="AABJ99_RS24950"
                     /pseudo=""
     CDS             827..>958
                     /locus_tag="AABJ99_RS24950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013578013.1"
                     /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="zinc-ribbon domain-containing protein"
                     /name="zinc-ribbon domain-containing protein"
     gene            complement(1107..1569)
                     /locus_tag="AABJ99_RS24955"
                     /old_locus_tag="VEE76_47560"
                     /pseudo=""
     CDS             complement(1107..1569)
                     /locus_tag="AABJ99_RS24955"
                     /old_locus_tag="VEE76_47560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416498.2"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="transposase"
                     /name="transposase"
     gene            1764..2906
                     /gene="wzz(fepE)"
                     /locus_tag="AABJ99_RS24960"
                     /old_locus_tag="VEE76_47570"
     CDS             1764..2906
                     /gene="wzz(fepE)"
                     /locus_tag="AABJ99_RS24960"
                     /old_locus_tag="VEE76_47570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010435173.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0009103 - lipopolysaccharide biosynthetic
                     process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WP_021544858.1"
                     /translation="MSAMDFKKNTDLDFPRYATPAVSTKEIDLLGLLDVLLAAKKRIVT
                     IVLAFAVVGLAIAFLIPQKWTSKAVITPAEQTQWNTLRQMMVTLQVLDVDAKVSRGDVF
                     NLFIKKFQSQSLLEEYMKTSPYVMSQLEGTEVDPLELHRAVVNIAEKMKATDNTQVKDA
                     DKAPYTSWTLSFTAPTAGDAQTVLEGYINYISRIVEQETMENIRNQITLKTKVVQQQLE
                     LDRVRLTNIHNTNLQRLNYSLEVANAAGIKKPVYSNGQAVKDDPDYSVALGADGIAQKL
                     QIEKNLKDVAELNADFQNREYYLTQLQKLSVEDVKLEPFRYQLSPSLPVKKDGPGKALI
                     VLLAGILGGLFACGSVLLREAMLSRNPLPEPITAVTPATE"
                     /name="wzz(fepE)"
     gene            complement(2944..>3186)
                     /locus_tag="AABJ99_RS24965"
                     /old_locus_tag="VEE76_47580"
                     /pseudo=""
     CDS             complement(2944..>3186)
                     /locus_tag="AABJ99_RS24965"
                     /old_locus_tag="VEE76_47580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003862821.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="cupin domain-containing protein"
                     /name="cupin domain-containing protein"
     gene            <3183..3365
                     /locus_tag="AABJ99_RS24970"
                     /pseudo=""
     CDS             <3183..3365
                     /locus_tag="AABJ99_RS24970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007798797.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="NINE protein"
                     /name="NINE protein"
     Typing          135..523
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.153"
                     /coverage="91.0"
                     /evalue="1.04e-173"
ORIGIN
        1 gcactggcgc gtacggtgcc gaagataagt ccggggatat tccgcttcct cgctcactga
       61 ctcgctacgc tcggtcgttc ggctgcggcg agcggaggga acggagacat taaggcacag
      121 gcaatgagag aggatcgaga ggcaaaagaa aaggccgcgg cgttgccggt tttccatagg
      181 ctccgccccc ctgacaagca tcacagaatc tgacgctcaa atcagtggtg gcgaaacccg
      241 acaggactta aagataccag gcgtttcccc ctggtggctc cctcgtgcgc tctcctgttc
      301 ctgcctttcg gtttaccggt gtcattccgc tgttatggcc gcgtttatct cattccacgc
      361 ctgacactca gttccgggta ggcagttcgc tccaagctgg actgtatgca cgaacccccc
      421 gttcagtccg accgctgcgt cttctccggt aactatcgac ttgagtccaa gccggaaaga
      481 cacgacaaag cgccactggc agcagccact ggtaactgat ttagaggagt tagtcttgaa
      541 gttatgcgcc tgttaaggct aaactgaaag aacagatttg gttactgcgc tcctcataag
      601 ccagttacca cggttcaaag agttgcagct ctgagaacct tcgaaaaacc gccttgctgg
      661 gcggtttttt cgtttactga gcaagagatt acgacgctac agaaaggatc tcaagaagat
      721 ccttcaccat aatggaaatc tatcccaccc gagcatatag gatgcatatc gttataaaac
      781 atcggatatt atgcatccca actaaaaata agctcgagga taaaaaatga gttcaatggt
      841 ttactgccga ggatgcggca aggaaataca cgaaacagca aagtcatgcc cacactgcgg
      901 agccacaaac gcctcttcag gttcaggtga aaaaagtaga atcgcagccg cgctattagg
      961 gaaggtgcga ataagcgggg aaattcttct cggttgactc agtcatttca tttcttcatg
     1021 tttgagccga tttttttctc ccgtaaatgc cttgaatcag cctatttaga ccgtttcttc
     1081 gccatttaag gcgttattcc cagtttttag tgagatctct cccactgacg tatcatttgg
     1141 tccgcccgaa acaggttggc cagcgtgaat aacatcgcca gttggttatc gtttttcagc
     1201 aaccccttgt atctggcttt cacgaagccg aactgtcgct tgatgatgcg aaatgggtgc
     1261 tccaccttgg cccggatgct ggctttcatg taaccgggca aacagacgca tggaggcgat
     1321 ttcgtacaga gcatcttcga tcgcgccatc gctcaggttg taccaatgct gcatgcagtg
     1381 aatgcgtagc atggtttcca gcggataagg tcgccggcca ttaccagcct tggggtaaaa
     1441 cggctcgatg acttccacca tgttttgcca tggcagaatc tgctccatgc gggacaagaa
     1501 aatctctttt ctggtctgac ggcgcttact gctgaattca ctgtcggcga aggtaagttg
     1561 atgactcatg atgaaccctg ttccatggct ccagatgaca aacatgatct catatcaggg
     1621 acttgttcgc accttcccta aatctgatag tcggtctaca gatagatcaa tctggcgttc
     1681 agattattct tactttcttg tatcatccga ccactgcaac caatcaggca gaaatttact
     1741 gcgctccaaa aagaagaacg gttatgtcag cgatggattt caagaaaaac acggacctcg
     1801 attttccccg ttatgccact ccggcggtaa gcaccaaaga gatagatctc ctggggttgt
     1861 tagacgtact tctggcagcc aaaaaacgta ttgtgacgat cgtcctggcg ttcgccgtag
     1921 tagggttggc cattgcgttt ttaatcccgc aaaaatggac cagtaaagcc gtgatcacgc
     1981 cggccgagca gacgcagtgg aacacgctgc gccagatgat ggtgacgctg caggtgctgg
     2041 acgtcgacgc gaaggtgagc cgtggagacg tgtttaacct gttcatcaaa aagtttcagt
     2101 cgcagtcgct gctcgaagag tacatgaaaa cctccccgta cgtgatgtct cagctggaag
     2161 gcaccgaggt agacccgctg gagctgcatc gcgcggtggt gaatattgct gagaaaatga
     2221 aagcgacaga taacacgcag gttaaagacg cagacaaagc gccgtatacc tcatggacgc
     2281 tgagctttac cgccccgacg gcgggagacg cgcagacggt tctggaaggt tacatcaact
     2341 atatctcccg cattgttgag caggagacga tggaaaatat ccgtaaccag atcacgctga
     2401 aaacgaaagt cgttcagcag cagctggagc tggatcgcgt gcgtctgacc aatatccaca
     2461 acaccaacct gcagcgcctc aactattcgc tggaagtggc gaacgcggca ggcattaaga
     2521 agccggttta cagcaacgga caggcggtaa aagacgatcc tgactactcc gtggcgctgg
     2581 gtgctgacgg tattgcgcaa aagctgcaga ttgaaaagaa tctgaaggac gtggccgagc
     2641 tgaatgcgga tttccagaac cgtgaatact atctgactca gttgcaaaaa ctgtccgtgg
     2701 aagacgtgaa gcttgaaccc ttcaggtatc agctttcacc gtcactgccg gtgaaaaaag
     2761 acggtccggg caaagccctg attgtgctgc tggcagggat tctgggcggc ctgtttgcct
     2821 gcggcagcgt gctgctgcgt gaggcaatgc tctcgcgtaa tccgttgcca gagccgataa
     2881 cggccgtaac gccagcaaca gagtaacgac gatattaaaa aggcgctgat tcagcgcctt
     2941 tttttatttc aggaaatcgt cgcgcaccgg cgtaaaggta tccagaaggg tgccgggctt
     3001 caggcaaatg cagccgtgca tcacgtgcgg cgctttatag agcgtatcgc ccgccgtcac
     3061 gatctgcttt tcttcaccta tcgtaaactc gaactccccg gagagcacat aggtaagctg
     3121 ttcatgcggg tgattgtgca tcgggccaat cgcaccctgc tcaaaattga cctccaccgc
     3181 catcatcttt cttagcattc ttccttggtg gatttggcgt acataaattt tacttaggta
     3241 aaataggaca gggattcctg tatctaattt tttgctggac attcataccc gcgatcatcg
     3301 cgtttattga gtttattatt tatctatgcg attccgatga aaaattcgca agaaaatatg
     3361 gctaactcat agcaaaaaag ccctgcgggg ctttttttgt accagtctgt gaggcagatt
     3421 taccataaca tccgttgcgt gcaccgcctg agaggctctc agggcgtttc tgggtcttcc
     3481 tgcctgtttc cgacacttcc ctgtgcctat atcgtgaaaa aacgcgcctg atgattctgg
     3541 cgcgtctgca tggctatgca cacacatgca tggccgggat tttagcggct aaaatccggc
     3601 tggacgccca aaagcaccac tgaacctcac gaataacgcc tcacgggtgt gcagtttact
     3661 gtgcggccgt gaggcgttgg ccaggccgtc aggcatggct ggatttattg ctaagggggt
     3721 cggatttaac gtggatgaat cagcacgcag tgatgaacgg gattcggaag gggcaccctt
     3781 gcggcgcggc gatgtataca tcgctaacgt gccttggtca tttattgcaa gaagggagag
     3841 gtagcatttt gatagcaaaa aagtagcaaa aggatagcaa ccgaaagacc agaagactct
     3901 ggagatagca aaaaagtagc aaaatggtag caaaaagata gcaaacatgc gggagctaac
     3961 caggagtctt tagcgggccg gcggtactcc aaaaacacat cttgtcccgc tgttttgtga
     4021 ataagccagc atagctgtgg gcacaaaaca tttcctgtcc gctgctttaa cctttgtaat
     4081 ccaggaacgt caggtgacgt cactttgcgg cgttagccct atcctgcatc gtattaaaaa
     4141 atgca
//
