LOCUS       NZ_AP027862             4145 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017-19-1CC plasmid p2017-19-1CC_8, complete
            sequence.
ACCESSION   NZ_AP027862
VERSION     NZ_AP027862.1
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  JOURNAL   Unpublished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 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                   :: 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
            AP027862.1.
            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="2017-19-1CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017-19-1CC_8"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            join(4095..4145,1..412)
                     /locus_tag="AABJ85_RS24545"
                     /pseudo=""
     CDS             join(4095..4145,1..412)
                     /locus_tag="AABJ85_RS24545"
                     /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            complement(<561..692)
                     /locus_tag="AABJ85_RS24550"
                     /pseudo=""
     CDS             complement(<561..692)
                     /locus_tag="AABJ85_RS24550"
                     /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(1000..1113)
                     /locus_tag="AABJ85_RS24555"
     CDS             complement(1000..1113)
                     /locus_tag="AABJ85_RS24555"
                     /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            complement(2299..2421)
                     /locus_tag="AABJ85_RS24560"
     CDS             complement(2299..2421)
                     /locus_tag="AABJ85_RS24560"
                     /inference="COORDINATES: protein motif:HMM:NF017007.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_115209648.1"
                     /translation="MGQGFLYLIFCWTFIPAIIAFIEFIIYLCDSDEKFARKYG"
                     /name="hypothetical protein"
     gene            2382..2720
                     /locus_tag="AABJ85_RS24565"
                     /old_locus_tag="VEE77_47350"
     CDS             2382..2720
                     /locus_tag="AABJ85_RS24565"
                     /old_locus_tag="VEE77_47350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014833142.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="cupin domain-containing protein"
                     /protein_id="WP_305955934.1"
                     /translation="MSSKKLDTGIPVLFYLSKIYVRQIHQGRMLRKMMAVEVNFEQGAI
                     GPMHNHPHEQLTYVLSGEFEFTIGEEKQIVTAGDTLYKAPHVMHGCICLKPGTLLDTFT
                     PVRDDFLK"
                     /name="cupin domain-containing protein"
     gene            complement(2758..3900)
                     /gene="wzz(fepE)"
                     /locus_tag="AABJ85_RS24570"
                     /old_locus_tag="VEE77_47360"
     CDS             complement(2758..3900)
                     /gene="wzz(fepE)"
                     /locus_tag="AABJ85_RS24570"
                     /old_locus_tag="VEE77_47360"
                     /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)"
     Typing          complement(997..1382)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.373"
                     /coverage="90.0"
                     /evalue="1.04e-173"
ORIGIN
        1 cagagcagaa aagagatttt cttgtcccgc atggagcaga ttctgccatg gcaaaacatg
       61 gtggaagtca tcgagccgtt ttaccccaag gctggtaatg gccggcgacc ttatccgctg
      121 gaaaccatgc tacgcattca ctgcatgcag cattggtaca acctgagcga tggcgcgatc
      181 gaagatgctc tgtacgaaat cgcctccatg cgtctgtttg cccggttaca tgaaagccag
      241 catccgggcc aaggtggagc acccatttcg catcatcaag cgacagttcg gcttcgtgaa
      301 agccagatac aaggggttgc tgaaaaacga taaccaactg gcgatgttat tcacgctggc
      361 caacctgttt cgggcggacc aaatgatacg tcagtgggag agatctcact aaaaactggg
      421 aataacgcct taaatggcga agaaacggtc taaataggct gattcaaggc atttacggga
      481 gaaaaaaatc ggctcaaaca tgaagaaatg aaatgactga gtcaaccgag aagaatttcc
      541 ccgcttattc gcaccttccc taatagcgcg gctgcgattc tacttttttc acctgaacct
      601 gaagaggcgt ttgtggctcc gcagtgtggg catgactttg ctgtttcgtg tatttccttg
      661 ccgcatcctc ggcagtaaac cattgaactc attttttatc ctcgagctta tttttagttg
      721 ggatgcataa tatccgatgt tttataacga tatgcatcct atatgctcgg gtgggataga
      781 tttccattat ggtgaaggat cttcttgaga tcctttctgt agcgtcgtaa tctcttgctc
      841 agtaaacgaa aaaaccgccc agcaaggcgg tttttcgaag gttctcagag ctgcaactct
      901 ttgaaccgtg gtaactggct tatgaggagc gcagtaacca aatctgttct ttcagtttag
      961 ccttaacagg cgcataactt caagactaac tcctctaaat cagttaccag tggctgctgc
     1021 cagtggcgct ttgtcgtgtc tttccggctt ggactcaagt cgatagttac cggagaagac
     1081 gcagcggtcg gactgaacgg ggggttcgtg catacagtcc agcttggagc gaactgccta
     1141 cccggaactg agtgtcaggc gtggaatgag ataaacgcgg ccataacagc ggaatgacac
     1201 cggtaaaccg aaaggcagga acaggagagc gcacgaggga gccaccaggg ggaaacgcct
     1261 ggtatcttta agtcctgtcg ggtttcgcca ccactgattt gagcgtcaga ttctgtgatg
     1321 cttgtcaggg gggcggagcc tatggaaaac cggcaacgcc gcggcctttt cttttgcctc
     1381 tcgatcctct ctcattgcct gtgccttaat gtctccgttc cctccgctcg ccgcagccga
     1441 acgaccgagc gtagcgagtc agtgagcgag gaagcggaat atccccggac ttatcttcgg
     1501 caccgtacgc gccagtgctg cattttttaa tacgatgcag gatagggcta acgccgcaaa
     1561 gtgacgtcac ctgacgttcc tggattacaa aggttaaagc agcggacagg aaatgttttg
     1621 tgcccacagc tatgctggct tattcacaaa acagcgggac aagatgtgtt tttggagtac
     1681 cgccggcccg ctaaagactc ctggttagct cccgcatgtt tgctatcttt ttgctaccat
     1741 tttgctactt ttttgctatc tccagagtct tctggtcttt cggttgctat ccttttgcta
     1801 cttttttgct atcaaaatgc tacctctccc ttcttgcaat aaatgaccaa ggcacgttag
     1861 cgatgtatac atcgccgcgc cgcaagggtg ccccttccga atcccgttca tcactgcgtg
     1921 ctgattcatc cacgttaaat ccgaccccct tagcaataaa tccagccatg cctgacggcc
     1981 tggccaacgc ctcacggccg cacagtaaac tgcacacccg tgaggcgtta ttcgtgaggt
     2041 tcagtggtgc ttttgggcgt ccagccggat tttagccgct aaaatcccgg ccatgcatgt
     2101 gtgtgcatag ccatgcagac gcgccagaat catcaggcgc gttttttcac gatataggca
     2161 cagggaagtg tcggaaacag gcaggaagac ccagaaacgc cctgagagcc tctcaggcgg
     2221 tgcacgcaac ggatgttatg gtaaatctgc ctcacagact ggtacaaaaa aagccccgca
     2281 gggctttttt gctatgagtt agccatattt tcttgcgaat ttttcatcgg aatcgcatag
     2341 ataaataata aactcaataa acgcgatgat cgcgggtatg aatgtccagc aaaaaattag
     2401 atacaggaat ccctgtccta ttttacctaa gtaaaattta tgtacgccaa atccaccaag
     2461 gaagaatgct aagaaagatg atggcggtgg aggtcaattt tgagcagggt gcgattggcc
     2521 cgatgcacaa tcacccgcat gaacagctta cctatgtgct ctccggggag ttcgagttta
     2581 cgataggtga agaaaagcag atcgtgacgg cgggcgatac gctctataaa gcgccgcacg
     2641 tgatgcacgg ctgcatttgc ctgaagcccg gcacccttct ggataccttt acgccggtgc
     2701 gcgacgattt cctgaaataa aaaaaggcgc tgaatcagcg cctttttaat atcgtcgtta
     2761 ctctgttgct ggcgttacgg ccgttatcgg ctctggcaac ggattacgcg agagcattgc
     2821 ctcacgcagc agcacgctgc cgcaggcaaa caggccgccc agaatccctg ccagcagcac
     2881 aatcagggct ttgcccggac cgtctttttt caccggcagt gacggtgaaa gctgatacct
     2941 gaagggttca agcttcacgt cttccacgga cagtttttgc aactgagtca gatagtattc
     3001 acggttctgg aaatccgcat tcagctcggc cacgtccttc agattctttt caatctgcag
     3061 cttttgcgca ataccgtcag cacccagcgc cacggagtag tcaggatcgt cttttaccgc
     3121 ctgtccgttg ctgtaaaccg gcttcttaat gcctgccgcg ttcgccactt ccagcgaata
     3181 gttgaggcgc tgcaggttgg tgttgtggat attggtcaga cgcacgcgat ccagctccag
     3241 ctgctgctga acgactttcg ttttcagcgt gatctggtta cggatatttt ccatcgtctc
     3301 ctgctcaaca atgcgggaga tatagttgat gtaaccttcc agaaccgtct gcgcgtctcc
     3361 cgccgtcggg gcggtaaagc tcagcgtcca tgaggtatac ggcgctttgt ctgcgtcttt
     3421 aacctgcgtg ttatctgtcg ctttcatttt ctcagcaata ttcaccaccg cgcgatgcag
     3481 ctccagcggg tctacctcgg tgccttccag ctgagacatc acgtacgggg aggttttcat
     3541 gtactcttcg agcagcgact gcgactgaaa ctttttgatg aacaggttaa acacgtctcc
     3601 acggctcacc ttcgcgtcga cgtccagcac ctgcagcgtc accatcatct ggcgcagcgt
     3661 gttccactgc gtctgctcgg ccggcgtgat cacggcttta ctggtccatt tttgcgggat
     3721 taaaaacgca atggccaacc ctactacggc gaacgccagg acgatcgtca caatacgttt
     3781 tttggctgcc agaagtacgt ctaacaaccc caggagatct atctctttgg tgcttaccgc
     3841 cggagtggca taacggggaa aatcgaggtc cgtgtttttc ttgaaatcca tcgctgacat
     3901 aaccgttctt ctttttggag cgcagtaaat ttctgcctga ttggttgcag tggtcggatg
     3961 atacaagaaa gtaagaataa tctgaacgcc agattgatct atctgtagac cgactatcag
     4021 atttagggaa ggtgcgaaca agtccctgat atgagatcat gtttgtcatc tggagccatg
     4081 gaacagggtt catcatgagt catcaactta ccttcgccga cagtgaattc agcagtaagc
     4141 gccgt
//
