LOCUS       CP125000                1667 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KSE-C11 plasmid pKSE-C11_5, complete
            sequence.
ACCESSION   CP125000
VERSION     CP125000.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598752
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1667)
  AUTHORS   Gomi,R., Matsumura,Y., Yamamoto,M., Matsuda,T. and Harada,H.
  TITLE     Genomic surveillance of antimicrobial-resistant Escherichia coli in
            fecal sludge and sewage in Uganda
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1667)
  AUTHORS   Gomi,R., Matsumura,Y., Yamamoto,M., Matsuda,T. and Harada,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-MAY-2023) Department of environmental engineering,
            Kyoto University, KyotoDaigakuKatsura, Nishikyo-ku, Kyoto-city
            615-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/09/2023 16:33:08
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,823
            CDSs (total)                      :: 4,701
            Genes (coding)                    :: 4,488
            CDSs (with protein)               :: 4,488
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 213
            CDSs (without protein)            :: 213
            Pseudo Genes (ambiguous residues) :: 0 of 213
            Pseudo Genes (frameshifted)       :: 62 of 213
            Pseudo Genes (incomplete)         :: 154 of 213
            Pseudo Genes (internal stop)      :: 37 of 213
            Pseudo Genes (multiple problems)  :: 40 of 213
            Pseudo Genes (short protein)      :: 4 of 213
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..1667
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KSE-C11"
                     /isolation_source="Sewage"
                     /db_xref="taxon:562"
                     /plasmid="pKSE-C11_5"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            complement(511..1212)
                     /locus_tag="QL136_24105"
     CDS             complement(511..1212)
                     /locus_tag="QL136_24105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003887 - DNA-directed DNA polymerase activity [Evidence
                     IEA]; GO_process: GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WHJ62936.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(512..1212)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gactgattca cttccgcttc ctcgcccact cgctcgctaa cgctcggtcg ctggggctgc
       61 ggcgagcgga cgatacaatc actgttctgg cagcgcctcc agctcgttaa tcagcggcag
      121 tatgcgcgtc acatcagcct gtcgtgtcac ctctgccttc aggaactgga gtacctggga
      181 ggaatggcag cgcgaggaag atgcacgaac acacaccacc gagaggagac atgatcgcgg
      241 ttggtcacag tgaatgtgaa caatattttg ttttgtttaa catcgtgtta tgttcgtcga
      301 tgttcttcga tgttcatcga cagggatgaa tgcaagaagc acactcacat aacgcaagca
      361 tagttttgtt tttccgcccc caaaaattgg ggggtctttt ttcgctgcat cagagcgttt
      421 ttgacgcaat ttttcacttc aatagtacct tcgcactact aacacaaaaa aaacgcagca
      481 gggagcgttt taggtgcctt aaaatcgatt ttagatcgtc atcttgatct gtttgtcttc
      541 cttgaagcga aaatgcaggg ctacaaccgt gcgccccttt ttgatcgtct caacagttac
      601 aaccagatcg cttttttcgt tcagttcggc gatggctggc ttgattatca tcttattcaa
      661 gtctttgaat tgttgatatt tatcttcaac ggcaagcatg gttcggaaat catcgatagc
      721 tatcgttctg tcaccggtgc tgcggaactg ctggagcagc tcgtaaatgc ggatgctgta
      781 ggtgctggaa aggctggaga cgttcttcac gactacccgc gtaaactgcc ccttgagctg
      841 tgtcagatac ggcatgatgg catcggagaa ggtgatatct actttcgcct cacctttgaa
      901 atactgcgcc cggtactgca cccagcggaa ctcttctcgt ttttcctcgt tcttgatgat
      961 tactgacctg tcccagaggc gatctatcgc ttccttgagc ctagcttcag cgtgctgccg
     1021 tcccatgtca ggaaaggcat catgaaactc tgcagccgtg atggtcatgg ttttttgttc
     1081 atccggcgaa ggggaatctt ctccggattt taggcggctg atacagacca gcaggaagcg
     1141 ctgttcctgc aaagtgagct tgtagcttgc ctcgataagg gcgtttgatt tgtaagctat
     1201 cagatctgac atttcgcttg ctcgttgcta ttggtggcgt ttttttactg tacgccactt
     1261 atcatatggg tggaagtttt ttttttgcaa cccccttttt ctgtggatta cacccccaaa
     1321 agctccacct ttcaccccca aaagctccac ctttcacccc caaaagctcc acctttcacc
     1381 cccaaaagct ccacttatct tgccagaaca tctttaaaat catggtgtta caagacctaa
     1441 aaaggtttta aaaaaaaaga tctaaaaata agatcttaaa aacttaacgg cgagcctgtg
     1501 gataacttgg ggtgctgaaa acaaaaaacc aataaaaaca atgcgttgca ataaagcaga
     1561 attgcaagtt tcgaatacac cccctccaac cctgtggaaa cccagtattc atgcgggttc
     1621 agcgcatatc acctgccgaa aaaccgtgcg tatgtgctca acctggc
//
