LOCUS       NZ_AP027799             3351 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.06.05CC plasmid p2017.06.05CC_9,
            complete sequence.
ACCESSION   NZ_AP027799
VERSION     NZ_AP027799.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562594
            Assembly: GCF_036504765.1
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  JOURNAL   Unpublished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 3351)
  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                   :: 183x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036504765.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:25:05
            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)                     :: 5,191
            CDSs (total)                      :: 5,071
            Genes (coding)                    :: 4,814
            CDSs (with protein)               :: 4,814
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 73 of 257
            Pseudo Genes (incomplete)         :: 187 of 257
            Pseudo Genes (internal stop)      :: 44 of 257
            Pseudo Genes (multiple problems)  :: 45 of 257
            Pseudo Genes (short protein)      :: 2 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027799.1.
            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..3351
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.06.05CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.06.05CC_9"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            join(2707..3351,1..219)
                     /locus_tag="AABK28_RS25940"
     CDS             join(2707..3351,1..219)
                     /locus_tag="AABK28_RS25940"
                     /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="replication initiation protein"
                     /protein_id="WP_077248426.1"
                     /translation="MELYQQDLFATMPFPSRPLCSDDLSHGIWRETLEDALRRPYIQAN
                     PQRRVWVLLFDVDHPLAAMAWDAAGLPPPTWTAQNPENGHAHIAYALSAPVAKSDAARL
                     KPLRLLARIQHAMTDALSADRGYVGLITKTPNHARWRTTVWRPEPYGLDELRDYLPDNL
                     ELPRHIKKTEAVGVGRNVSLFESLRHWAYSHRRNYDNHTAWFCACLSHAEALNTFATPL
                     EFNELKATAKSVAKWTWERFDVAASNARFSEKQARRGRLGGMKGAPKTNTLRQMQLIDI
                     QAGLMQ"
                     /name="replication initiation protein"
     gene            216..497
                     /locus_tag="AABK28_RS25945"
                     /old_locus_tag="VEE55_49380"
     CDS             216..497
                     /locus_tag="AABK28_RS25945"
                     /old_locus_tag="VEE55_49380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010840487.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003700 - DNA-binding transcription factor activity
                     [Evidence IEA]; GO:0016987 - sigma factor activity
                     [Evidence IEA]"
                     /GO_process="GO:0006352 - DNA-templated transcription
                     initiation [Evidence IEA]; GO:0006355 - regulation of
                     DNA-templated transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sigma factor-like helix-turn-helix DNA-binding
                     protein"
                     /protein_id="WP_050952183.1"
                     /translation="MSGIKKIARERNMTAREAAQKFGKSPRTIQRLVALDRDEYLERAA
                     ERRQKVYDMRVTGAKWQEIAEAMGVSYGAVRSLYYQHCRHLKAAMPRQ"
                     /name="sigma factor-like helix-turn-helix DNA-binding
                     protein"
     gene            complement(567..1850)
                     /locus_tag="AABK28_RS25950"
     CDS             complement(567..1850)
                     /locus_tag="AABK28_RS25950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003030985.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_274445564.1"
                     /translation="MLRGDPEQVRELINSAGFSRNYTSAVLSFEESSISPELRQQCMDE
                     FERVLLPGLDADQYSALWVEHTDKGRVELNVVIPNVELQSGKRLQPYYDPADRPRVDAW
                     KTAINAEHGLADPDDPTRQRALSTSQDLPRERKTLSEALTRGLMAQVGEGLIRTRKDVL
                     EAIQSVGLEISRVTRNSISVKAPDGGKNIRLKGTIYERDFEFSQELRGKIEAAGIGYRR
                     ENQSRAEAARKRLAGMLENRAEENRKRYPRTQPAIEGQPVKELAWSAYRDAGGPDARRR
                     DSVLDDDRNPQPLCGAGQVAERQSYHLWEAGTVMRGDRSHSTDLWPEWRISGSERGLNE
                     PEPDRATACPSPAGSGNGEGSFAQIIADFEERVRTDTTRQQETSRTSRAIERGISGISA
                     SIEHLEAVVMQMRQEYAHRLSRGMSMSR"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1933..2250)
                     /locus_tag="AABK28_RS25955"
                     /old_locus_tag="VEE55_49410"
     CDS             complement(1933..2250)
                     /locus_tag="AABK28_RS25955"
                     /old_locus_tag="VEE55_49410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011178376.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_013246618.1"
                     /translation="MTDAKRTKSIKIRVTDEELSELRERCPAGELAPWLRELGLGQKRP
                     RRAERVDPALLRQLAGVGNLLNQIARRINSGQWSYGDRVEILAALWHIEKRLQDININA
                     G"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(571..1943)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.817"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacacctttg ctacgccttt ggagttcaac gagctgaaag ccaccgccaa gagcgtagcc
       61 aaatggacat gggagcgatt cgacgttgcc gccagtaatg ccagattttc agaaaaacag
      121 gcgcgccgtg ggcgcttagg tggtatgaaa ggagcaccca aaacaaacac cttacggcaa
      181 atgcaattga ttgatataca agcgggtttg atgcaatgag cggaatcaaa aagatcgcca
      241 gagagcgaaa catgacggcg agggaggccg cgcaaaaatt cggaaaatca ccgcgcacaa
      301 tccagcgcct tgtagcgctc gatcgtgacg aatacctaga acgcgccgcg gaacggcgtc
      361 agaaggtcta cgacatgcgc gttactggtg caaaatggca ggagatagcc gaggcaatgg
      421 gcgtcagcta cggcgctgtg cgtagcctgt attaccagca ctgccgccat ctaaaagcag
      481 cgatgccgag acaataagcg ctacggtcaa aggttcaagc tcgccttgtg cctttgaccg
      541 tagcaaacaa cgaccgtagg gaggcgttag cgagacatcg acatgccacg gctgagcctg
      601 tgagcatatt cctgccgcat ctgcatcacc accgcctcca ggtgctcaat acttgcgcta
      661 attcctgaaa ttcctcgctc aattgctcga cttgttcgcg aagtttcctg ttgtcgcgtc
      721 gtgtctgttc gtactcgctc ttcaaagtct gcaataatct gcgcaaagct tccctctccg
      781 tttccacttc ccgcagggct tgggcaagct gttgctctat ctggctctgg ctcattcagc
      841 cccctttcac tacccgatat tcgccattcg ggccataagt cggtgctatg ggatctatct
      901 ccacgcataa ccgtcccagc ttcccacaag tggtaacttt ggcgttcggc aacttgtcca
      961 gctccgcata gcggttgcgg atttcggtcg tcatccagta cagaatcccg cctcctagca
     1021 tcaggaccgc cagcatcgcg ataagcgctc caagccaact ctttaacagg ctggccctca
     1081 atcgccggct gtgttcttgg atagcgcttt cgattttctt ctgctctgtt ttcaagcatt
     1141 ccagcaaggc gctttcgtgc tgcttcagcg cggctttgat tttctcgtcg gtatccgatg
     1201 cctgctgctt caatttttcc tcgaagctcc tggctaaatt caaaatctcg ctcataaatc
     1261 gtccctttca gtctgatatt ttttccaccg tccggtgcct tcacgctgat actgtttctg
     1321 gtaaccctcg aaatttccaa tcctacgctc tgtatggcct ccagaacgtc ttttcgggtt
     1381 ctaatcaacc cttcccctac ctgagccatt aaaccgcgcg taagagcttc tgagagcgtt
     1441 ttacgctcac gtggtaaatc ttgggatgtg gatagcgcac gttgccgagt cggatcatca
     1501 ggatccgcaa ggccatgttc cgcgtttatc gctgttttcc atgcgtccac ccgtggtcgg
     1561 tctgcggggt cgtaatatgg ctgtaagcgc ttgccgcttt gtaattcaac gttagggata
     1621 acaacattca gttccacacg ccccttgtct gtgtgttcca cccaaagggc gctgtactga
     1681 tcagcatcca gtccaggtaa gagaaccctc tcaaattcat ccatgcactg ctgacgtaac
     1741 tcggggctta tgctggattc ttcgaaggac aacaccgcgc tggtgtagtt acgactgaat
     1801 ccggcgctgt ttatcagctc ccgcacctgt tcagggtcac cgcgtaacac ggttgctccc
     1861 tccctctgcc gatccttgcc gaggagataa tcaacagggc cggagcctcc gccttttcct
     1921 cgtgccatga acttaaccag cattgatatt gatgtcctgt aatcgcttct cgatgtgcca
     1981 cagcgccgcg agaatctcta cgcgatcgcc ataactccac tgacctgaat tgatacgacg
     2041 ggcgatctga ttcagtaaat taccaacccc cgccaactgc cgcagcagcg cggggtccac
     2101 acgttcggct cgccgcggac gcttctgacc aagcccaagt tcacgcaacc acggcgcaag
     2161 ctcaccagcg ggacaccgct ccctaagctc ggaaagttcc tcatcggtca cgcggatttt
     2221 gatggatttg gtgcgctttg catcggtcat ccggtgctcc tcttttgggg gtttcggggg
     2281 cgcagcccct gaaccagcca cggaggcccg aaggggtctc tgtgtgtgct ggcttactgt
     2341 acttaatgat ggcatgggga gataaacatt ggaagagtga cataggggga gcaccgtggc
     2401 gtaagtgctc aatgcagcat ccggctccct ggtgcttcct cgcccactcg ctcgctacgc
     2461 tcggtcgctg gggctgcggc gagcactacc tacacacaca aacaaacaca acgagacaca
     2521 tcgagaggag aaacaagacg gaagaactac tgcgcaaaaa gcaaccaaaa acctgtatat
     2581 ctgattatgg ctcgtttgac gtagttgaac acatacacaa aagcgcgtaa atttcaggca
     2641 tgaaaaaccc cgcaacggga gcaagcgttc ggggtcgtgg caaggactga aaagggagtc
     2701 cccgcattgg aattatacca acaagacctg tttgcaacca tgccatttcc cagtcgtccg
     2761 ctgtgttcgg acgatctgag ccacggcata tggcgcgaaa cgctagagga cgcgctacgg
     2821 cgtccctaca tccaagcgaa cccacaacgc cgcgtgtggg ttctcctgtt cgacgttgac
     2881 catcccctgg cggcgatggc gtgggacgca gccggactgc cgccgccaac atggacggca
     2941 caaaacccgg aaaacggaca cgcccacatt gcttacgcac tgagcgctcc ggtggcgaag
     3001 tcggacgcgg cgcggctcaa acccctgcgc ctactggcac gcatacagca cgccatgaca
     3061 gacgctctga gtgccgacag gggctatgtc ggactgatta ccaagacgcc aaaccatgcc
     3121 cgttggcgca ccaccgtatg gcgtcctgag ccatacggct tggatgaact acgcgactac
     3181 ctaccggaca atctggagtt gcccaggcat atcaaaaaaa ccgaagcggt cggcgtcggt
     3241 cgcaatgtgt cgctgtttga atcactgagg cattgggcgt acagccaccg ccgcaactac
     3301 gacaaccata cggcgtggtt ttgcgcctgt ttgagtcatg ccgaagcgct a
//
