LOCUS       NZ_AP027825             3877 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.17.01CC plasmid p2017.17.01CC_3,
            complete sequence.
ACCESSION   NZ_AP027825
VERSION     NZ_AP027825.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562603
            Assembly: GCF_036505675.1
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  JOURNAL   Unpublished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 3877)
  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                   :: 67x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036505675.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:10:44
            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)                     :: 4,673
            CDSs (total)                      :: 4,556
            Genes (coding)                    :: 4,337
            CDSs (with protein)               :: 4,337
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 219
            CDSs (without protein)            :: 219
            Pseudo Genes (ambiguous residues) :: 0 of 219
            Pseudo Genes (frameshifted)       :: 59 of 219
            Pseudo Genes (incomplete)         :: 140 of 219
            Pseudo Genes (internal stop)      :: 49 of 219
            Pseudo Genes (multiple problems)  :: 30 of 219
            Pseudo Genes (short protein)      :: 4 of 219
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027825.1.
            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..3877
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.17.01CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.17.01CC_3"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            complement(join(3210..3877,1..16))
                     /locus_tag="AABJ82_RS23320"
     CDS             complement(join(3210..3877,1..16))
                     /locus_tag="AABJ82_RS23320"
                     /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_094322852.1"
                     /translation="MKKILPFIFMLASCGHYVDGYDGYTKAQLERMDQDIIRYYNKTPV
                     NDGTVFGYNFTKLSNRQYLNQSGFINVISDHKSVDVYEKKNISDGILKTSMIVIKNNKP
                     ITLYVAFETLNKGDIPDSFIDAINNLIANNYGVEPIVGTKIKLMTKSDYKYKYIKNRPS
                     KSDYINYKSGISNIIESISYSYDKSKSRYDFNKVVYRIDFVGFAMQQQKYLSAQERSRV
                     DFIGS"
                     /name="hypothetical protein"
     gene            complement(13..918)
                     /locus_tag="AABJ82_RS23325"
                     /old_locus_tag="VEE60_45170"
     CDS             complement(13..918)
                     /locus_tag="AABJ82_RS23325"
                     /old_locus_tag="VEE60_45170"
                     /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_094322853.1"
                     /translation="MSNVALKLFNDRLPHKPYFTDELQCGLRIAGKERAILAKYIQFNQ
                     PHAQYWLCFDVDRPGAAIDWSDRNAPAPTLTIMNKANGHAHLLYALKTAVRTAPDGKMK
                     PLKYAAAVESALREKLGADVGYSGLICKNPNHENWQIAVWQPELYTLDWLADSLDLNSA
                     NEKTILPDYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLKACYERASAYNLQFISPLD
                     EKEVNGIAKSIANWTYKKFSKVKFEIYVSYTHSSEIQSRRGIASGIKRYIGSLEEQKPW
                     DKLGISRRTYFYKRKKGILK"
                     /name="replication initiation protein"
     gene            complement(1127..2650)
                     /locus_tag="AABJ82_RS23330"
                     /old_locus_tag="VEE60_45180"
     CDS             complement(1127..2650)
                     /locus_tag="AABJ82_RS23330"
                     /old_locus_tag="VEE60_45180"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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_338383269.1"
                     /translation="MIVKFNSRGAGAGSGPVDYLLGKERNREQAKTLRGDPERVKTLID
                     TCDFARTYTSGVLSFEEKDLPDVDKQQLMDELEQTLLPGLDKDQYSILWVEHQDKGRLE
                     LNFVIPNIELHSGKRLQPYYDRADRPRVNAWQTLTNDRLGLSDPNDPERRREFTPGRDL
                     PKNSQKAAESITAGLSHLAMQGLVRNRQDVINVLESAGMTIARETKSSISIASPDGGKN
                     LRLKGALYERDFRFSESLRGELEAAGATYRDARESRISEAERCYQRGIELKREEYQQRY
                     PRRDPTTPTALENHLPAGNEMAVDWPVIHRPDLRRTDRGNLLVSEPATRGNTDQRTESS
                     RAEFQNGQGDRGTERDRQIPRSVLHHPAEARQQHTDLPLPETNGSELQRQITQERSPEP
                     LSDDLTHSGKESHDRDRKTLVERIRELTTRLKDTAASLTRQFQEFTGHVRENTARESSL
                     SQSLHEAEPASRGLEQASKRLEQHSESLSQTVAAKELSQLKENDRGMSL"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2640..2969)
                     /locus_tag="AABJ82_RS23335"
                     /old_locus_tag="VEE60_45190"
     CDS             complement(2640..2969)
                     /locus_tag="AABJ82_RS23335"
                     /old_locus_tag="VEE60_45190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /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_094322851.1"
                     /translation="MEKRTKEIKIRLTDDEHQRLLERSQRTHLAEWLRELGLGERTPSK
                     RRKLPDVDPQLFRQIAGTSNNLNQIARKLNQMESLVAEDKIRLLSLLTSIDRQLTEILE
                     QHRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
ORIGIN
        1 gtagtatttt tttcatttta atattccttt tttcctttta tagaaataag ttctcctgct
       61 aattcctaac ttatcccatg gtttttgttc ttctaaacta ccgatatacc ttttaattcc
      121 ggaagcaata cctcggcgag attgaatttc tgaagaatga gtataactca cataaatttc
      181 gaatttaact ttactaaatt ttttgtaagt ccaattcgca atacttttag caattccatt
      241 aacctctttt tcatccagtg gtgatataaa ttgcagatta taagcactag ctctttcata
      301 acaggctttt agccactgct catactcagg ccaaccttga cggatagcgc ggtaagccca
      361 ctttctcgtt ttatcgaaca gtgtgcagtt acggcctaag ccataatcgg ggaggatagt
      421 tttttcgttg gctgagttca gatcaagtga gtctgcaagc cagtcgaggg tatacagttc
      481 tggctgccaa acagcgattt gccagttttc gtggtttgga ttcttgcaaa ttaaccccga
      541 ataccccacg tcagcgccta atttttcacg cagcgcactc tcaaccgccg ctgcatattt
      601 gagtggtttc atttttccat ctggtgccgt gcgtaccgct gtttttaggg cgtaaagtag
      661 gtgtgcatgg ccattggctt tgttcatgat agtgagtgtg ggcgcaggag cgttacggtc
      721 gctccaatca atggcagcgc ccggtctgtc tacgtcaaag cagagccagt attgagcgtg
      781 aggttggtta aactggatat atttggcaag gattgcccgc tcttttcctg cgatacgtaa
      841 accgcattgc agttcgtccg tgaagtacgg tttgtggggc aatctgtcgt taaaaagttt
      901 gagtgctacg ttactcaatg agccctgcgc ttatggcggg ctgttgtgtt gcacgtctca
      961 tgtgctaata tccttcttag gtttttacct gcgccctgat ttcatattcc cttccgccaa
     1021 gttgagatat gaattcgggg cgttgtcttt tctaatggca ttaaagttac acgcaaatga
     1081 cagtttctgt cgagttcctc gaataatttc tccgtatacc aacaaattac aggctcatcc
     1141 ctcggtcatt ttctttaagc tggctcagct ctttggcggc tacagtctgg ctaagcgatt
     1201 cactgtgttg ctcaagtcgt ttacttgctt gctcaagccc tcgacttgct ggttcagcct
     1261 cgtgcagtga ttggctaagg cttgattctc ttgccgtgtt ttctcgtaca tggcctgtaa
     1321 actcctgaaa ctgtcgagta aggcttgctg ctgtgtcttt gagtcgtgtt gtaagctctc
     1381 taatgcgctc aacaagagtt tttctgtctc ggtcatggga ttctttgcct gagtgggtta
     1441 aatcgtcgct gagaggctct ggtgagcgct cttgggttat ttgacgctgt aattcactac
     1501 cgtttgtttc tggtaggggt aagtctgtat gttgctggcg cgcttcggca ggatgatgta
     1561 gtactgacct tggtatttgc ctgtcccttt ctgtaccacg atccccttgc ccgttttgga
     1621 attcagcacg gctagactct gttcgttggt ctgtatttcc tcgagttgct ggttcagata
     1681 ccagtaggtt cccccgatca gtgcggcgca aatcagggcg atgaataaca ggccaatcca
     1741 cagccatttc attaccggcc ggtaaatggt tttcaagtgc tgttggtgtt gttgggtcgc
     1801 gtcttggata gcgctgttga tactcttcac gcttgagttc aattcctcgc tgatagcagc
     1861 gttcagcttc tgaaattcgg ctttcacgtg cgtctcggta tgttgcgcct gctgcttcga
     1921 gttctcctcg aaggctttcg ctaaatcgga aatcccgctc atagagtgct cctttgagtc
     1981 tgaggttttt accgccgtcc ggtgaggcga tgctgatgct ggatttggtt tctcgggcaa
     2041 tggtcatgcc ggcagattct aggacgttga tgacatcctg acggttacga acaagccctt
     2101 gcatggcgag gtgagagagt cctgccgtaa tggactccgc cgctttttgg ctgtttttcg
     2161 gcaagtctct gcccggggtg aattcacgcc ggcgttctgg gtcgttgggg tcacttaatc
     2221 cgagtcggtc attggtcagc gtttgccatg cattgacccg agggcggtcg gcacggtcgt
     2281 aatagggttg tagacgttta ccgctgtgta attcgatgtt cgggatgaca aaattaagct
     2341 ctaaccggcc tttgtcctga tgctcaaccc aaaggatgct gtattggtct ttatcaagtc
     2401 cagggagtag cgtttgctca agttcgtcca tcagctgctg tttgtctacg tcagggagat
     2461 ctttctcttc aaacgagagg acaccagacg tataggttcg agcgaaatcg caggtgtcta
     2521 tcagggtttt tacccgttcg ggatcacccc gtaaggtttt ggcctgttca cgattacgtt
     2581 ctttgccgag aagataatcc acgggaccac tgccagcacc cgcaccacgg gaattaaatt
     2641 taacgatcac gatgctgctc cagtatctca gttaactggc gatcgatact cgtgagtaag
     2701 ctcagtaacc ggattttgtc ctcagcgacc agactctcca tctgattaag tttacgagct
     2761 atctggttaa ggttgttact cgtgccggct atctgtcgga ataactgcgg atcaacatcc
     2821 ggtaatttac gacgctttga gggtgtccgt tcacctaatc caagttcacg taaccactcc
     2881 gctagatggg ttctctgact ccgctcaaga agtcgttgat gttcatcatc ggtgagcctg
     2941 attttgattt ctttggtgcg cttttccata ccgactccgc tgagaaagtt ttgcacgcca
     3001 agtgcgaaag tttcgcagtg gatgcccggg gtttcggggg gcggcgagcc ccctgaacca
     3061 gtcacggtga accctcgtta gaggggactc cgtgtgtact ggcttataag tatatttatc
     3121 tacttaaaat atcaagtcac ggaaaaataa aaaagcccca taaaggggct gttatctgat
     3181 ataggttcga gtgcaaaaag aatagaagtc tagctaccga tgaaatcgac tctggacctt
     3241 tcctgtgcag acaagtactt ctgttgttgc atagcaaaac cgacaaaatc aatgcgatat
     3301 acgactttgt taaaatcata cctggatttt gatttatcat agctatatga gatggattct
     3361 ataatgttac ttatccctga tttataattt atataatcag acttcgatgg cctatttttg
     3421 atatatttat atttgtaatc actttttgtc attaatttaa ttttggttcc gacaattggt
     3481 tctacaccat aattattagc tattagatta ttaatagcat caataaaact atcagggata
     3541 tctcctttat ttaaagtttc aaaagccacg tagagagtaa ttggtttatt atttttaatt
     3601 acgatcatgg atgttttcaa aatgccatca ctaatatttt ttttctcgta aacatctact
     3661 gacttatggt cggaaatgac atttataaaa ccagactgat tcaaatattg cctgttagat
     3721 aacttggtga aattataacc aaaaacagtc ccatcattca ctggggtttt attgtaatat
     3781 ctaatgatat cttgatccat ccgctctagc tgagccttag tatatccgtc atatccatca
     3841 acataatgtc cgcaagatgc gagcataaat ataaaag
//
