LOCUS       NZ_CP091670             3133 bp    DNA     circular CON 20-MAY-2024
DEFINITION  Escherichia coli strain KOr019 plasmid pKOr019_5, complete sequence.
ACCESSION   NZ_CP091670
VERSION     NZ_CP091670.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25236411
            Assembly: GCF_022494685.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3133)
  AUTHORS   Gomi,R.
  TITLE     Genome sequencing of blaCTX-M-carrying Escherichia coli isolates
            recovered from river water in Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3133)
  AUTHORS   Gomi,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-JAN-2022) Department of Environmental Engineering,
            Kyoto University, Kyotodaigakukatsura, Nishikyo-Ku, Kyoto-City
            615-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022494685.1-RS_2024_05_20
            Annotation Date                   :: 05/20/2024 03:36:36
            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)                     :: 5,259
            CDSs (total)                      :: 5,146
            Genes (coding)                    :: 4,949
            CDSs (with protein)               :: 4,949
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 197
            CDSs (without protein)            :: 197
            Pseudo Genes (ambiguous residues) :: 0 of 197
            Pseudo Genes (frameshifted)       :: 87 of 197
            Pseudo Genes (incomplete)         :: 137 of 197
            Pseudo Genes (internal stop)      :: 42 of 197
            Pseudo Genes (multiple problems)  :: 56 of 197
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091670.1.
            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..3133
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KOr019"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKOr019_5"
                     /geo_loc_name="Japan"
                     /lat_lon="34.6 N 135.5 E"
                     /collection_date="2013"
                     /collected_by="Kyoto University"
     gene            join(2871..3133,1..490)
                     /locus_tag="L6L58_RS26235"
                     /old_locus_tag="L6L58_26230"
     CDS             join(2871..3133,1..490)
                     /locus_tag="L6L58_RS26235"
                     /old_locus_tag="L6L58_26230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001127762.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016249639.1"
                     /translation="MDTTSLISSISVPRLSFYETFLGCATDQEKVGAYVAYQDLSGDFF
                     CLVQMIEVALRNAINNTIKANHGPAWYDSIPQTKKSQDLVLNAKQKALDECGVRYTDDD
                     VICRLTFGFWVYMLDAPYRDTQRPCYIWTPENKAKTFPHAKNPLGGGDMKVKALFDEFH
                     KVLLFRNRLFHHEPIWKKHHCKSHSQAINNMLKEFNFLMNALSIVSNEKKELIEFIGHD
                     RRFYERCTIEYVMGIIGRIKCRELKVAG"
                     /name="hypothetical protein"
     gene            complement(515..658)
                     /locus_tag="L6L58_RS26240"
                     /old_locus_tag="L6L58_26235"
     CDS             complement(515..658)
                     /locus_tag="L6L58_RS26240"
                     /old_locus_tag="L6L58_26235"
                     /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_152918943.1"
                     /translation="MNTKVLFVKKALKSITCAILSLLPALSRAVTELRSLSAARLKAGK
                     SF"
                     /name="hypothetical protein"
     gene            complement(1020..1133)
                     /locus_tag="L6L58_RS26450"
     CDS             complement(1020..1133)
                     /locus_tag="L6L58_RS26450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071790583.1"
                     /translation="MHEPPVQSDYCALSGNYRLESNPERHDLSPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(1631..1804)
                     /locus_tag="L6L58_RS26245"
                     /old_locus_tag="L6L58_26240"
     CDS             complement(1631..1804)
                     /locus_tag="L6L58_RS26245"
                     /old_locus_tag="L6L58_26240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_240723829.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDSLDADAQAAMCEKLHELA
                     EELQNSIQTRFE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2089..2412
                     /gene="mobA"
                     /locus_tag="L6L58_RS26250"
                     /old_locus_tag="L6L58_26245"
     CDS             2089..2412
                     /gene="mobA"
                     /locus_tag="L6L58_RS26250"
                     /old_locus_tag="L6L58_26245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="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="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          1843..2080
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.167"
                     /coverage="99.0"
                     /evalue="2.15e-118"
     Typing          complement(863..1312)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.494"
                     /coverage="90.0"
                     /evalue="1.02e-154"
     Typing          2090..2409
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="2.32e-62"
ORIGIN
        1 gaaacaaaaa gcgctagatg agtgtggcgt aaggtatacg gatgatgatg ttatttgccg
       61 tctaaccttt ggcttttggg tttatatgtt agatgcccca tatagggata cgcaaaggcc
      121 gtgctacatc tggactccag agaacaaggc aaaaacattt cctcatgcga agaatccttt
      181 gggtgggggg gatatgaagg ttaaagcgtt gtttgacgag tttcataaag ttcttttgtt
      241 taggaatcga ctttttcacc atgagcctat ttggaaaaaa caccactgca agtcgcatag
      301 tcaagccata aataatatgt tgaaagagtt caatttttta atgaatgcct tgagtatcgt
      361 ctctaacgag aaaaaggaac ttattgagtt tattgggcac gataggcgct tttatgaacg
      421 ctgcacgata gagtatgtta tggggattat agggaggatt aagtgcaggg agcttaaggt
      481 agccggttga cttttaagga aaaatgtgat ataatcaaaa gctcttaccg gctttaagtc
      541 gcgcagccga aaggctacgt aactctgtta ctgcgcgact taaagccggt aagagcgaaa
      601 gaattgcgca agtaattgat ttcaaggctt ttttcacaaa aagaacttta gtattcattt
      661 tcataatcct ctatttctta tgccgttcta atggcagcgt tgacttttta ttccatctat
      721 ttgaatggtt aattatacca tatctgacat caaatcttaa ggataaatag ctgattcaca
      781 tcagtttttc cattaatcca caaactttta taatttaatt gcggatttcc ttgagttcat
      841 atcgcgccca tcgtaatctt aaaaacgaaa aaaccacccg gcaaggtggt ttttcgaagg
      901 ttcagcaacc ggcaagtttc tgaacctcgg taactggctt aagaggagcg cagtcaccaa
      961 aacttgttct tccagtttag ccttaactgg cacgtaactt caagactaac tcctctaaat
     1021 cagttaccag tggctgctgc caatggcgat aagtcgtgcc tttccgggtt ggactcaaga
     1081 cgatagttac cggataaggc gcagtagtcg gactgaacgg ggggttcgtg catacagtcc
     1141 agcttggagc gaactgccta cccggaactg agtgtcaggc gtggaatgag ataacgcggc
     1201 cataacagcg gaatgacacc ggtaaaccga aaggcaggaa caggagagcg cacgagggag
     1261 ccatcagggg gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca cctctgactt
     1321 gagcgtcgat ttttgtgatg ctcgtcaggg gggcggagcc tatggaaaaa cgccaccggc
     1381 gcggcctttt tcgggttctt gttttttgct cacatgtttc ttttggcgtt atcccctgat
     1441 tctgtggata acctcattac cgtctttgag tgagctgata ccgctcgccg cagccgaacg
     1501 accgagcgta gcgagttagt gagcgaggaa gcggaagagc gccttatgtg gtattttctc
     1561 cttacgcacc ggtatatcgt tctgcatcct gtctggtgta ggaacactgt tattccccgg
     1621 tgccactttc ctattcaaag cgtgtctgta tgctgttctg gagttcttct gcgagttcgt
     1681 gcagtttctc acacatggcg gcctgtgcat cagcatcgag tgagtccagt ttttcgagca
     1741 gcgtcaggct ctggcttttt atgaattttg ccatgttaag tgcggtttgc tgctgcttgt
     1801 tcatctttct gttttctccg ttctgtctgt catctgcgtc gtgtgattat atcgcgtacc
     1861 acttttcgac agttttgccg ccggtattct gccgtctgac tctttgacgg gcatttctgc
     1921 ctgacaatac tgtcactgcc aaaaaactgc cgtgcctttg tcggtaattc gaacttgctg
     1981 acaggacagg atgtgtaatt gttataccgc gcatacatgc gcgctattac aattaccctg
     2041 gtcagggctt cgccccgaca ccccatgtca gatacggagc catgttttat gacaaaacga
     2101 agtggaagta atacgcgcag gcgggctatc agtcgccctg ttcgtctgac ggcagaagaa
     2161 gaccaggaaa tcagaaaaag ggctgctgaa tgcggcaaga ccgtttccgg ttttttacgg
     2221 gcggcagctc tcggtaagaa agttaactca ctgactgatg atcgggtact gaaagaagtt
     2281 atgagactgg gggcgttaca gaaaaaactc tttatcgacg gcaagcgtgt cggggacaga
     2341 gagtatgcgg aggtgctgat cgctattacg gagtatcacc gggccctgtt atccaggctt
     2401 atggcagatt agcttcccgg agagaaactg tcgaaaacag acggtatgaa cgccgtaagg
     2461 ccccaaaccg atcgccattc actttcatgc atagctatgc agtgagctga aaacggtcct
     2521 gacgcatttt tccggttttc actgggtaaa acatctcttt ttgcggtgtt tgcggcagaa
     2581 tcgcgttcag cgcgttttag cggtgcgcgt aaggggagtt atggtaaatt ggcagcaaag
     2641 tattttctga tgttgtggat tgtgaagagt attcaattct tattatgaaa caataactat
     2701 aactggttgt ttcatataga taaatataac aaaaaagccc actctgtagt gggctttttt
     2761 gttatatttt acgctctaga ggtacacaga aaaacggtag ttcgcctgct cctcgaatgt
     2821 tgtaatggta gtctgaaaaa tattcatagt aaagagataa gtgagttttc atggatacaa
     2881 caagtttaat tagctcaatt tctgtaccaa gattatcttt ctatgaaaca tttcttgggt
     2941 gcgctactga tcaagaaaag gttggggcat acgttgccta ccaagatctg tctggcgatt
     3001 ttttttgtct tgtccagatg attgaggttg ctctgcgtaa tgcgataaac aatacaatca
     3061 aagctaatca tgggcctgct tggtacgact ctatacctca aacaaagaaa tctcaggatc
     3121 ttgttttaaa tgc
//
