LOCUS       NZ_AP027805             3525 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.10.01CC plasmid p2017.10.01CC_5,
            complete sequence.
ACCESSION   NZ_AP027805
VERSION     NZ_AP027805.1
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  JOURNAL   Unpublished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 3525)
  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
            AP027805.1.
            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..3525
                     /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_5"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            complement(join(3406..3525,1..6))
                     /locus_tag="AABJ86_RS23670"
     CDS             complement(join(3406..3525,1..6))
                     /locus_tag="AABJ86_RS23670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_072006160.1"
                     /translation="MHEPPVQSDRCACSGNYRLESNPERHDKAPLAAAIGNLVRR"
                     /name="replication initiation protein"
     gene            complement(1239..1933)
                     /locus_tag="AABJ86_RS23675"
     CDS             complement(join(1239..1687,1687..1933))
                     /locus_tag="AABJ86_RS23675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012477181.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /protein_id="WP_094322401.1"
                     /translation="MASVNIHCPRCQSARVYRHGQNPKGRDRFRFRDCHRVFQLTYTYQ
                     ARKPGMKELITEMAFNGAGFRDTARTLKIGISTVIRTFKKLAPTRITSSPVAHADVALI
                     CELDEQWSYVGSKARQHWLWYAYNTKTGGVLAYTFGPRTDQTCRELLALLTPFNIGMLT
                     SDDWGSYGRVVPKNKHLTGKIFPQRIERNNLTLRTRIKRLARKTICFSRSVEIHEKVIG
                     AFIEKHMLY"
                     /name="IS1 family transposase"
     gene            1913..2113
                     /locus_tag="AABJ86_RS23680"
     CDS             1913..2113
                     /locus_tag="AABJ86_RS23680"
                     /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_094322402.1"
                     /translation="MNINAGYEITSKASIIHQIQLIRGITQNLHAKGELWHQLAVDGLM
                     KLCVYLKNGDGEVANRIPHGE"
                     /name="hypothetical protein"
     gene            complement(2287..2886)
                     /locus_tag="AABJ86_RS23685"
     CDS             complement(2287..2886)
                     /locus_tag="AABJ86_RS23685"
                     /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_240743510.1"
                     /translation="MSIILFVVFSLILSSIFLLANKNKINIKYELNMIANSPGMIINCG
                     DDFYCKANIIQSIINNKSKSITSNIDERGKKINLSWAGDDRYKPSVTAEVNAIHKAIND
                     WYIQDYKTYKSIINNQDSNYINGTETYAKVSLLTKTNTSGERNFISINNEIVNKKYKPA
                     LIMTLTLIMAIIFSSSYHIIKRSVLEYKNKLNRSFY"
                     /name="GNVR domain-containing protein"
     Typing          complement(2..391)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.643"
                     /coverage="94.0"
                     /evalue="7.74e-171"
     Typing          complement(3421..3525)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.79e-34"
ORIGIN
        1 gtgcatacag tccagcttgg agcgaactgc ctacccggaa ctgagtgtca ggcgtggaat
       61 gagataaacg cggccataac agcggaatga caccggtaaa ccgaaaggca ggaacaggag
      121 agcgcacgag ggagccacca gggggaaacg cctggtatct ttaagtcctg tcgggtttcg
      181 ccaccactga tttgagcgtc agatttcgtg atgcttgtca ggggggcgga gcctatggaa
      241 aaacggcttc gccgtggcct tcttgcttcc ctgttaagct tcttcctgga agatgcctgg
      301 aaatttccgc cccgccagta agccggtacc gctcgccgca gccgaacgac cgagcggagc
      361 gagtcagtga gcgaggaagc ggaatatctc cgggcttatc tttggcaccg tacgcgccat
      421 agctgcattt tttaatacga tgcaggatag ggccaacgcc gcaaagtgac gtcacctgac
      481 gttcctggat tacaaaggtt aaagcagcgg acaggaaatg ttttgtgccc acagctatgc
      541 tggcttattc acaaaacagc gggacaagat gtgtttttgg agtaccgccg gcccgctaaa
      601 gactcctggt tagctcccgc atgtttgcta tctttttgct acttttttgc tatcaaaatg
      661 ctacctctcc cttcttgcaa taaatgacca aggcacgtta gcgatgtata catcgccgcg
      721 ccgcaagggt gccccttccg aatcccgttc atcactgcgt gctgattaat ccacgttaaa
      781 tccgaccccc ttagcaataa atccagccat gcctgacggc ctggccaacg cctcacggcc
      841 gcacagtaaa ctgcgcaccc gtgaggcgtt attcgtgagg ttcagtggtg cttttgggcg
      901 tcctgccgga ttttagcggc taaaatccca gccatgcatg tgtgtgcata gccatgcaga
      961 cgcgccagaa tcatcaggcg cgttttttca cgatataggc acagggaagt gccggaaaca
     1021 ggcaggaaga cccagaaacg cgctgaggct gtctgagagg gtgcgggcaa cagatgttat
     1081 ggtaaattag gcgcatgata actcattccg tatatattat tttctttagt aacgtatgga
     1141 caggatattg gtaaatggat tcagtaaaaa aaacgggatt gatgaagctg aaatgcagac
     1201 ttatatatcc acggttcaga atctggtagt gcatccaatt agtagagcat gtgtttttcg
     1261 ataaacgctc cgatcacttt ttcgtggatc tcaactgagc gtgagaagca gattgtttta
     1321 cgagccaacc gcttaatgcg ggtgcgtagc gtcagattat tacgctcaat gcgttggggg
     1381 aatattttgc cggtcagatg cttattcttc ggcaccaccc ggccatagct gccccagtca
     1441 tcgctggtga gcatgccgat gttgaagggg gtaagcagtg ccagtagctc ccggcacgtt
     1501 tgatcggttc ggggaccaaa agtgtaggcc agtacaccgc ctgttttggt gttgtacgcg
     1561 taccagagcc agtgttgccg ggctttactg ccaacgtagc tccattgctc atcaagctcg
     1621 cagataagcg ccacatcagc atgggcaaca ggagaagaag ttattcgcgt tggcgcgagt
     1681 tttttaaagt tcggatgacg gtgctaatac caattttcag tgtcctggcg gtatcgcgaa
     1741 acccggcacc attaaaggcc atttcagtga tcagctcttt catacccggc ttacgtgctt
     1801 gataagtata agtgagctga aacacacggt ggcagtcacg gaagcgaaat ctgtcacggc
     1861 ctttagggtt ctgaccatgg cggtaaaccc gagctgactg acaacgggga caatgaatat
     1921 taacgctggc tatgagataa cctcaaaagc cagtattata catcagattc aactaattag
     1981 aggtatcacc cagaatcttc atgctaaagg tgagttatgg catcagttag ctgtagatgg
     2041 tctaatgaaa ttatgcgtgt atcttaaaaa tggagatggc gaggtggcca atcggattcc
     2101 tcatggggaa taaaaactgc tgtagttggc ccagtgccat gaggaatcag ttaggcaaga
     2161 agggtaagaa atagatctga ctacccttat tcacgtgaga tttatcggga ggcccgctat
     2221 tagcgggctt ttctgcatca ggcgtgtaac ggatgttgct agaatacggt tattaatcgt
     2281 tacaggctaa taaaaagacc tatttaactt atttttatat tcaagcacag atctttttat
     2341 tatatggtac gaggaggaaa agataatagc cataattaac gttagagtca taatcaaagc
     2401 tggtttatac tttttattta ctatttcatt attgattgaa ataaagtttc tttctccgga
     2461 agtgtttgtt ttagttaata atgaaacttt tgcatatgtt tcagtgccat ttatatagtt
     2521 gctatcctgg ttgttaatta tgcttttata agttttataa tcttggatgt accagtcatt
     2581 aatagcttta tggatagcgt ttacttcagc ggtaaccgag ggtttgtaac ggtcatcacc
     2641 agcccatgac aggtttattt ttttccctct ttcatctata tttgatgtta tagacttgct
     2701 tttattgttt ataattgatt gtataatatt cgctttgcaa taaaaatcat ccccacagtt
     2761 aataatcatg cctggtgaat tagcgatcat gtttaattcg tactttatat ttattttgtt
     2821 tttgtttgct aacaagaaaa tagatgacaa aattaatgag aaaacaacaa acaaaataat
     2881 actcacgatt tttttcttaa gaaagagaaa taactcgatg aaatcaatat caggtgaatt
     2941 gctttccatt tttatatacc aacaatagtt attaaagtat aggataaata aataaataaa
     3001 attaaaatag ccgtgatgaa tattttcgct gatttagtat atttcatttt aaatgccaat
     3061 caaataaaaa acattttacc tattatttag gggtgaggaa actcttaaaa tcaatttttt
     3121 ttgtttgttt tttgttcgat catgtctatg gagggagttg ttatcagcct gtatcctttc
     3181 cacatatttt aagatcttct tgagatcttt gtgttacagc cgtaatctct tggtctgaaa
     3241 acgaaaaaac cacccggcaa ggtggttttt cgaaggttca gtaaaccggc aagtttctga
     3301 accgtggtaa ctggctttcg cagagcacag caaccaaatc tgtccttcca gtgtagccgt
     3361 actgatgcgc acacttcaag agcaacctcg tgtttagcta acaaatcatc tgcgaaccaa
     3421 gttaccaatg gctgctgcca gtggcgcttt gtcgtgtctt tccgggttgg actcaagtcg
     3481 atagttaccg gaacaggcgc agcggtcgga ctgaacgggg ggttc
//
