LOCUS       NZ_CP091713             4072 bp    DNA     circular CON 20-MAY-2024
DEFINITION  Escherichia coli strain KFu014 plasmid pKFu014_1, complete sequence.
ACCESSION   NZ_CP091713
VERSION     NZ_CP091713.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25236397
            Assembly: GCF_022494855.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  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  JOURNAL   Unpublished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 4072)
  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_022494855.1-RS_2024_05_20
            Annotation Date                   :: 05/20/2024 03:23:19
            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)                     :: 4,835
            CDSs (total)                      :: 4,722
            Genes (coding)                    :: 4,584
            CDSs (with protein)               :: 4,584
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 138
            CDSs (without protein)            :: 138
            Pseudo Genes (ambiguous residues) :: 0 of 138
            Pseudo Genes (frameshifted)       :: 56 of 138
            Pseudo Genes (incomplete)         :: 88 of 138
            Pseudo Genes (internal stop)      :: 31 of 138
            Pseudo Genes (multiple problems)  :: 29 of 138
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091713.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFu014"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKFu014_1"
                     /geo_loc_name="Japan"
                     /lat_lon="34.6 N 135.7 E"
                     /collection_date="2011"
                     /collected_by="Kyoto University"
     gene            join(4025..4072,1..654)
                     /locus_tag="L6L57_RS24055"
                     /old_locus_tag="L6L57_24055"
     CDS             join(4025..4072,1..654)
                     /locus_tag="L6L57_RS24055"
                     /old_locus_tag="L6L57_24055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(912..3059)
                     /gene="mobQ"
                     /locus_tag="L6L57_RS24060"
                     /old_locus_tag="L6L57_24060"
     CDS             complement(912..3059)
                     /gene="mobQ"
                     /locus_tag="L6L57_RS24060"
                     /old_locus_tag="L6L57_24060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_032495499.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGKSGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            3238..3492
                     /gene="mobC"
                     /locus_tag="L6L57_RS24065"
                     /old_locus_tag="L6L57_24065"
     CDS             3238..3492
                     /gene="mobC"
                     /locus_tag="L6L57_RS24065"
                     /old_locus_tag="L6L57_24065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2702..3060)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3061..3237
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2..654
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(916..3146)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.989"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tacaagctca ctttgcagga acagcgcttc ctgctggtct gtatcagccg cctaaaatcc
       61 ggagaagatt ccccttcgcc ggatgaacaa aaaaccatga ccatcacggc tgcagagttt
      121 catgatgcct ttcctgacat gggacggcag cacgctgaag ctaggctcaa ggaagcgata
      181 gatcgcctct gggacaggtc agtaatcatc aagaacgagg aaaaacgaga agagttccgc
      241 tgggtgcagt accgggcgca gtatttcaaa ggtgaggcga aagtagatat caccttctcc
      301 gatgccatca tgccgtatct gacacagctc aaggggcagt ttacgcgggt agtcgtgaag
      361 aacgtctcca gcctttccag cacctacagc atccgcattt acgagctgct ccagcagttc
      421 cgcagcaccg gtgacagaac gatagctatc gatgatttcc gaaccatgct tgccgttgaa
      481 gataaatatc aacaattcaa agacttgaat aagatgataa tcaagccagc catcgccgaa
      541 ctgaacgaaa aaagcgatct ggttgtaact gttgagacga tcaaaaaggg gcgcacggtt
      601 gtagccctgc attttcgctt caaggaagac aaacagatca agatgacgat ctaaaatcga
      661 ttttaaggca cctaaaacgc tccctgctgc gttttttttg tgttagtagt gcgaaggtac
      721 tattgaagtg aaaaattgcg tcaaaaacgc tctgatgcag cgaaaaaaga ccccccaatt
      781 tttgggggcg gaaaaacaaa actatgcttg cgttatgtga gtgtgcttct tgcattcatc
      841 cctgtcgatg aacatcgaag aacatcgacg aacataacac gatgttaaac aaaacaaaat
      901 attgttcaca ttcactgtga ccaaccgcga tcatgtctcc tctcggtggt gtgtgttcgt
      961 gcatcttcct cgcgctgcca ttcctcccag gtacgattaa aacccagcga gcggaacaga
     1021 tgatccggct gtttttctgg tgtgttgacg gcagcaaaaa gcggtgcctc acgggttttc
     1081 agatgaaact gcatcagttc tggtgcaggt gatatgtggc tgtctgcatc gtgatttacg
     1141 gcaacaccat accctgcata ccgtaacccc ttatcggtca gcgcactgat gaccagatgc
     1201 ctgttatcgg ctgagggaac ggcaaacgcg ggatacagcg taccattaag ccggataaca
     1261 ccgcccagag agtcatccac gcccatgacc agcaaaagct gaagctggcg ggtttcccgg
     1321 tcgacagaac tcatgaccgg catcagcgtc ggtggcagac gtccctgcat aaaatccacc
     1381 ttccttgccg ctggtgatgg catggctggc tggcggtctt ctccaagaca gaaagactcc
     1441 ggccatgtct tcggctggcg gagattgcgg gtatgttgcg gccatgtctg gcaaacctgc
     1501 gtcagcagtt gctcaaaggt tgcagaggaa taaacacgtt gcagtggcgg acgttggccg
     1561 atttcgcttc ggtcacagat ataaccactc ctgtcacgca ttaaatcaac actctcaaag
     1621 attctggtgc ggtatttctc cagctcgttc ccccagagcg tatattctcc gttccggttg
     1681 tgaagcagaa ggtaacaggt catttccccg ttaccaggca tgggagcctc gccatacccc
     1741 gtaacgactg ctctcagcac ccctgaatcc ataacggcat tgtcattttt cctgagctgc
     1801 tccgcgcgac tacgttcagt atcttcctgt tccttccggc gcaattcctc ttcacgttta
     1861 agcaactggg ctctgagagc tgcaaggccg gatttccccc actgctgcca ctgtttttca
     1921 aatgccatct gactcgcggg aatgtcctgt ttctccacct tccggtaatg ctgtcgtaat
     1981 ttttccattt gctggctcag agactggatt tttccctgct cactacggta ttccggtgcc
     2041 gcccattgca tcaggggaat acgggaaaaa ccggacgaaa acggcgatga ttttttcagg
     2101 ctggcagcat ggctcatcgc ttcctttcgt tcggtgttca gctcttccca gcgtctgcgc
     2161 gtcgcctgca tatctgccat catcgacatg gcattactgg tgagtttcca tgccgagtta
     2221 ctgtccttcg gcaacgcttc gataatgtca cgtagtgtgt acgaagttgc gttgtcagga
     2281 agcccgatat tcagaaggtc agccacacgg cgggcaggct ctgtcagccc tccgttcctg
     2341 agttcggtgc gggaaatctg tatttccagg ttaagcctgt taatcagacg attctgttcg
     2401 ccgcgttctg tttcgatacc gcgtgtttcc atcgcacagg cagactttcc gaggtgaata
     2461 ccaggcgttt tctcaagccc ctgtcgctcg tatgaacgat ggtctatctc ttcctgataa
     2521 ccggcgttcg ccagtgccct gtttgcatgg tcagcccatg atgcccgcca cgtctcggca
     2581 tgtgtccggt cgttccagtc cctgaccttt ccgctgaacc cagcaggtcc gatagccctc
     2641 gtggtcagca tgatgtgcgc atggggattt gttttatcca tgtgatggaa cgccacatca
     2701 gcaatcatgc cctgactgac aaagttttct ctgacaaagg cgagaacggt ttcccgtgcg
     2761 gcatcctgcg gcagttcgtg ggggatggcg agttcaattt cccgcgcaag ttgtgagttc
     2821 ttccggcgtt cggccttctc aacggcattc cagagttcgg cacggttcgt acaccaggca
     2881 ggggcggtgg cgggggtcag aatcacagcc tcagccacac cgcttttgcg ggtgtagtcg
     2941 tgagtcagtc cggtacgctc atcaagcatc agtgaaccgg aacgataggc agcggaagct
     3001 acggcgctgt agccgctgct tctggagata attttcatgc tgagatgata aatcgccatt
     3061 tctgccgtaa tgcctttttg tagttttctt tcagccccgc agggcgcaca caatcgaaac
     3121 ggagtggaga ttgtataagt gcgcacttcg tgatttgccg tgcattatgc cagctcagtt
     3181 tttaaactac cagtgacgcg ctaaaatgcg atttttcatc gcgcacggag ttacatcatg
     3241 agcagaacgc tcgaacagaa gattgctgat gctgaggcga gattacagcg cctgaaggcg
     3301 aagagccgga gcctggacac agcgcagaag gttgttgtgg gtgctgcatt gctggcaaag
     3361 gtcagaaagc cggaggaggt gcagttgcgt gcctggttac tccagttcct gaaggcagag
     3421 gtgacacgac aggctgatgt gacgcgcata ctgccgctga ttaacgagct ggaggcgctg
     3481 ccagaacagt gattgtatcg tccgctcgcc gcagccccag cgaccgagcg ttagcgagcg
     3541 agtgggcgag gaagcggaag tgaatcagtc gccaggttga gcacatacgc acggtttttc
     3601 ggcaggtgat atgcgctgaa cccgcatgaa tactgggttt ccacagggtt ggagggggtg
     3661 tattcgaaac ttgcaattct gctttattgc aacgcattgt ttttattggt tttttgtttt
     3721 cagcacccca agttatccac aggctcgccg ttaagttttt aagatcttat ttttagatct
     3781 tttttttaaa acctttttag gtcttgtaac accatgattt taaagatgtt ctggcaagat
     3841 aagtggagct tttgggggtg aaaggtggag cttttggggg tgaaaggtgg agcttttggg
     3901 ggtgaaaggt ggagcttttg ggggtgtaat ccacagaaaa agggggttgc aaaaaaaaaa
     3961 cttccaccca tatgataagt ggcgtacagt aaaaaaacgc caccaatagc aacgagcaag
     4021 cgaaatgtca gatctgatag cttacaaatc aaacgccctt atcgaggcaa gc
//
