LOCUS       CP124992                1667 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KSE-C14 plasmid pKSE-C14_2, complete
            sequence.
ACCESSION   CP124992
VERSION     CP124992.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598753
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  JOURNAL   Unpublished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                   :: Flye v. v2.9.1-b1780
            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 16:42:55
            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)                     :: 4,616
            CDSs (total)                      :: 4,494
            Genes (coding)                    :: 4,219
            CDSs (with protein)               :: 4,219
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 275
            CDSs (without protein)            :: 275
            Pseudo Genes (ambiguous residues) :: 0 of 275
            Pseudo Genes (frameshifted)       :: 83 of 275
            Pseudo Genes (incomplete)         :: 192 of 275
            Pseudo Genes (internal stop)      :: 43 of 275
            Pseudo Genes (multiple problems)  :: 44 of 275
            Pseudo Genes (short protein)      :: 4 of 275
            CRISPR Arrays                     :: 3
            ##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-C14"
                     /isolation_source="Sewage"
                     /db_xref="taxon:562"
                     /plasmid="pKSE-C14_2"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            complement(52..753)
                     /locus_tag="QL147_23080"
     CDS             complement(52..753)
                     /locus_tag="QL147_23080"
                     /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="WHJ54033.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(53..753)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taacacaaaa aaaacgcagc agggagcgtt ttaggtgcct taaaatcgat tttagatcgt
       61 catcttgatc tgtttgtctt ccttgaagcg aaaatgcagg gctacaaccg tgcgcccctt
      121 tttgatcgtc tcaacagtta caaccagatc gcttttttcg ttcagttcgg cgatggctgg
      181 cttgattatc atcttattca agtctttgaa ttgttgatat ttatcttcaa cggcaagcat
      241 ggttcggaaa tcatcgatag ctatcgttct gtcaccggtg ctgcggaact gctggagcag
      301 ctcgtaaatg cggatgctgt aggtgctgga aaggctggag acgttcttca cgactacccg
      361 cgtaaactgc cccttgagct gtgtcagata cggcatgatg gcatcggaga aggtgatatc
      421 tactttcgcc tcacctttga aatactgcgc ccggtactgc acccagcgga actcttctcg
      481 tttttcctcg ttcttgatga ttactgacct gtcccagagg cgatctatcg cttccttgag
      541 cctagcttca gcgtgctgcc gtcccatgtc aggaaaggca tcatgaaact ctgcagccgt
      601 gatggtcatg gttttttgtt catccggcga aggggaatct tctccggatt ttaggcggct
      661 gatacagacc agcaggaagc gctgttcctg caaagtgagc ttgtagcttg cctcgataag
      721 ggcgtttgat ttgtaagcta tcagatctga catttcgctt gctcgttgct attggtggcg
      781 tttttttact gtacgccact tatcatatgg gtggaagttt tttttttgca accccctttt
      841 tctgtggatt acacccccaa aagctccacc tttcaccccc aaaagctcca cctttcaccc
      901 ccaaaagctc cacctttcac ccccaaaagc tccacttatc ttgccagaac atctttaaaa
      961 tcatggtgtt acaagaccta aaaaggtttt aaaaaaaaag atctaaaaat aagatcttaa
     1021 aaacttaacg gcgagcctgt ggataacttg gggtgctgaa aacaaaaaac caataaaaac
     1081 aatgcgttgc aataaagcag aattgcaagt ttcgaataca ccccctccaa ccctgtggaa
     1141 acccagtatt catgcgggtt cagcgcatat cacctgccga aaaaccgtgc gtatgtgctc
     1201 aacctggcga ctgattcact tccgcttcct cgcccactcg ctcgctaacg ctcggtcgct
     1261 ggggctgcgg cgagcggacg atacaatcac tgttctggca gcgcctccag ctcgttaatc
     1321 agcggcagta tgcgcgtcac atcagcctgt cgtgtcacct ctgccttcag gaactggagt
     1381 acctgggagg aatggcagcg cgaggaagat gcacgaacac acaccaccga gaggagacat
     1441 gatcgcggtt ggtcacagtg aatgtgaaca atattttgtt ttgtttaaca tcgtgttatg
     1501 ttcgtcgatg ttcttcgatg ttcatcgaca gggatgaatg caagaagcac actcacataa
     1561 cgcaagcata gttttgtttt tccgccccca aaaattgggg ggtctttttt cgctgcatca
     1621 gagcgttttt gacgcaattt ttcacttcaa tagtaccttc gcactac
//
