LOCUS       CP125068                5164 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KFS-B24 plasmid pKFS-B24_4, complete
            sequence.
ACCESSION   CP125068
VERSION     CP125068.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598740
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5164)
  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  JOURNAL   Unpublished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 5164)
  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 16:46:15
            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)                     :: 5,120
            CDSs (total)                      :: 5,003
            Genes (coding)                    :: 4,789
            CDSs (with protein)               :: 4,789
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 214
            CDSs (without protein)            :: 214
            Pseudo Genes (ambiguous residues) :: 0 of 214
            Pseudo Genes (frameshifted)       :: 81 of 214
            Pseudo Genes (incomplete)         :: 148 of 214
            Pseudo Genes (internal stop)      :: 39 of 214
            Pseudo Genes (multiple problems)  :: 50 of 214
            Pseudo Genes (short protein)      :: 4 of 214
            ##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..5164
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFS-B24"
                     /isolation_source="Fecal sludge"
                     /db_xref="taxon:562"
                     /plasmid="pKFS-B24_4"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            1..915
                     /locus_tag="QL139_25525"
     CDS             1..915
                     /locus_tag="QL139_25525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WHK00766.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1119..1517)
                     /locus_tag="QL139_25530"
     CDS             complement(1119..1517)
                     /locus_tag="QL139_25530"
                     /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="WHK00767.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1694..2620
                     /locus_tag="QL139_25535"
     CDS             1694..2620
                     /locus_tag="QL139_25535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WHK00768.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2623..3156
                     /locus_tag="QL139_25540"
     CDS             2623..3156
                     /locus_tag="QL139_25540"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHK00764.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3222..3431)
                     /locus_tag="QL139_25545"
     CDS             complement(3222..3431)
                     /locus_tag="QL139_25545"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHK00765.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     Typing          2..915
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.694"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1695..2617
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcgccg cgcttcaata cttcgaagaa aatttacccc accgtcccta tcacacggat
       61 gatctcgctt tcggccttcg tatctccggc aaagggcgcg cgcttcttgc acggtatatc
      121 cagcagaacc agcctcatgc acagttctgg ctggtttttg acgttgaccg cgagggggct
      181 gctattgact ggagcgaccg gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg
      241 aacggacacg ctcacctgct ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc
      301 tcggttaagg cgctgaaata tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt
      361 gcggatgtga actacagcgg cctgatttgc aaaaatccgt tccacctgga atggctggtg
      421 atggagtggc gcgaggaagc ctataccctc gatgaactgg ctgattatct cgatttgagc
      481 gcctcagcgc gtcgtagcat cgataaacat tacgggatgg ggcgaaactg ccacctgttc
      541 gaaatgacgc gcaaatgggc ttacagggcg attcgtcagg gctggccagc gttctcacag
      601 tggcttgaag cggtgatcca gcgtgtcgaa atgtacaatg catcgcttcc cgttccgctt
      661 tcactggctg aatgtcgggc tattggcaag agcattgcga aatacacgca caggaacttc
      721 acgccggaaa ctttcgcaca gtatgtggct gatacgcaca cgccagaaat tcaggctgca
      781 cgcggtcgca agggcggttc taagtctaag cgcagcacag tagctacatc tgcacgcacg
      841 ctgaaaccgt gggaggcatt agggatcagt cgcgcctggt attaccaact gaaaaaacga
      901 ggtctcgtag agtagaccaa ataagcctat atcagataac agcgcctttc tggtgtcttt
      961 ttgagcagca ggttttttgc cgtttttccc cgttcagccc tgcaatggcg cggctttccg
     1021 cgtgattgtg gtggtagtgc tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc
     1081 gaggaagcac cagggaatcg gaacacggat ggaggcactt acgcgtctgg gtttggggat
     1141 gtctccagat cgtacttaag ttccttaagt gcttgtaata tcctgtcttt tttatagcat
     1201 agctcgcctg tttttgtgtc taccagtcct gcttcgatca gtagcccagc cgcgagaaag
     1261 agccggtgat tgcgttcccg tcgttgtttt tttccctcga ttcgtttctg gaccgcctgt
     1321 tttcgttcgc tctcctgtgc ctgtaagtcg tttttttccg ctgttgccag tacgtggaga
     1381 agtttgcgtt cctgttctgt gagtccggct tcgttgtcga tcaggtcaat aatctgtctc
     1441 tgtcgtgcgg tctgttctcc gagcttcctg atgaatccga tccgtttctt cagccattcg
     1501 atgttgctga tgcgcatgtt cgtgatgctc cctggtgttt ttttgcggtg tgttgtggtc
     1561 gtgcagtata tcgcttgcgg tcggcgggtg cagggggtat cttccgtgct aattcgtaaa
     1621 attagaagga agcgcactta tatgtttctc tccttcgtcg agaaacagtg cgctcctgca
     1681 gagggctgaa accgtggcaa cctatcacct cagcgttaaa tttggtggca aggggcaggc
     1741 tgcaaaccac gccgattaca tcgagcgcaa agagaaatac cgcgaccgtc aggatttgga
     1801 atattccgca cacggaaaca tgccggaatg ggccagggat aatccttccc atttctggca
     1861 ggcggctgac cagtttgaac gtgcgaacgg ttcgacctat agggaacttg aaattgcatt
     1921 accccgtgaa ctgacaccgg aacagcgcct tgaactggtg caggattttg tacgtcagga
     1981 agctggcgaa cggcacgcct ggagttttgc cattcacaat ccgaaagcga gcattgacgg
     2041 cggcgaacag cctcatgcgc atatcatgat gagtcagcgt gtgaatgatg gcattgaacg
     2101 tacaccggaa cagtatttcc ggcgctataa cgccaggtat cccgagcggg gaggtgcgaa
     2161 aaaggattcc ggaagcctga ctctcactca gcaaaaagag cagttgcggg aattgcgaaa
     2221 acgctgggag gtgaagcaca acgaacatat gagaaagcat ggctttgaaa ggggcttcat
     2281 tgactgccgg acgctgaaag aacagggcat tgaacgacgt cccgaagtgc atctgggttt
     2341 tgaagctgcc ggacggcttg atgatgccca gcgtcatgac atcatgcaaa aacggtctga
     2401 accggactat tcccgccatc ttgaacaggc gcgaacggtc gggcatgaca tcagggaatg
     2461 gctggacact ccggttaagc aacatgaact ggtcagaagg ctgcaacatg atgttgcgcg
     2521 ggagcatggc tttgacatga gagacagagt gagcagacag aaccgaactg cacctgaacg
     2581 ggttaaatca ccgtcacgtg gattttctat gggattctga acatggccag cacagaagaa
     2641 aaattactca cgctcctgtt atcggtggag catctgcaac ataccgcaat ggagcaacag
     2701 aaagctgttg ctgattctct ggctgtggca agggaaactc ttcgcggata tcgggatatt
     2761 tctgacggtg tggcaaaaca ggtcagggat gaagtcagaa atgaggtgca gaagctggac
     2821 gtggcaggac tgataggtga gcgcatcagc caggattttc agcggctgga agagtcagtc
     2881 gcaaacatga aggcaaacgc ggatgccctg aacagggata ttgcgacaat tcacagcaat
     2941 atcgtgcagg aatacaacac ccttaaaggg tatagctgga aatggctggg tggggtgtca
     3001 gtggcttttc tggttatgtt ctgtgtgctc ggatggggaa tgaaaacaat actcgacagg
     3061 aactacaacg ccacagcggc ggtgtatcag aaagttgtga cactggaaga taaactggtg
     3121 gagaaacctg tcacggggaa gagccggaaa aactgacgcg cttcgcttgt ccaacgcctc
     3181 acgacccgcg aaaggatttc gcgaaccgtt caccgttttt ttcaatatga ttctgtctgc
     3241 tttggtcgat aaagcagacg atagtattcc agccttcgta tatataacgg tacgtgctca
     3301 tcagtaagag ctggcggtat tgtgttatca gggggaagtt ttttcagata ctcacgaaat
     3361 gcctggcttg atgccataaa atctacagta gcatcgataa tatgtggggt gttttcacct
     3421 aattttgcca tgatgataat ccttatatta tcacggtttg tgaatgatag ggtgtcacta
     3481 ttatttatgc gttagtgaac cagaaaaaat cccccgttgg cataggggga tatgtaagga
     3541 gaaataactt cgcaggtgtt cttgtttgta taacgtgaaa agactgcacg caacttaata
     3601 agtctgccgt acttactttc agttttcaac ataaggttta taacaatgta tggaatggaa
     3661 gtgagcttta aggtttcagc tctaaaaaat aaaatattta ttagttggct ggttgttgtt
     3721 cttgttctgt atgtatataa acactctcga catattatga ccgggaacat tccttacccc
     3781 ctctgcgctc gcagaggttt tttttgtcat taattaataa tgaactgaaa tgcagttccg
     3841 atacctccat ttgcacatta tccctgacat atggtaccgg aaccgcatta attttatgtt
     3901 ataagagttt atttttaatg tccagatggt ttaatagtat ttatatgtaa ttagctgtat
     3961 ggatagtact ggttttattg tataacttgt cgtttttttt attgtttttg tgtggtgtgc
     4021 taatctttaa gttataaaaa aaccccttgg aatacagggg caaaagtaag gaaaacaaat
     4081 ggatgctcag tttgtgtgac actttaaact aatggaacta tagagtggag gttgttacag
     4141 tcgcttttat aaaacagcaa ccagtttttt tcaatagtct gatgatggtt gtgacagttt
     4201 tgtgatattg ttcaaaatgt ttcttgttga atgtttgttt tttggtctat tggtgtctgg
     4261 ttttattttt tctgctatta catatcaaga aatgtgattg gtgtagcaag agtggaatgc
     4321 gatgtggata aactaattgg ttgtcgaatc taatttactt agaaaactac acttgttttt
     4381 gtgtatgaat ttagtgaatt tgtctgtcta tgtgttttcg tgcatttata aatccttcgt
     4441 caggatctta aatttagtgt tgaatatgta gggcctgtac ggtaattatt atttagcgta
     4501 gctacttcat cgttgttcga acacaaccaa caacctgtaa ttgttgtttc tcttggttcc
     4561 ccacttttgt ggggtttttt atctcttccg tgcatcgtaa agcgcggact ccttctggaa
     4621 aggttgtttt agggcatcac tgaggcattt tttgcgtttg tgaatattga gcatccgata
     4681 actaaaatat ttcccataga ctctgattct tgccaccgac cccaggtcgg tttttttttg
     4741 tcctggcgag atgtgaagtt tggaaacagg aaaccccgtc agagcgccac gcactagggg
     4801 agaaaacttg tcgttttgag ccgttcggtg ttcagaacgc acgaaaccga tcgcacatcg
     4861 ctttcgtgca tagttatgca acgccctgaa aacgattctg acgcgttttt ctggtttggc
     4921 ctggtgtttt cttgtctttt tgcgtttttt gcgccagaaa gcgactgagg gcgttttaat
     4981 gggtacgtac aacgggagtt atggtaaatg gatcggtttt gcgggaaggc tcgacaggtt
     5041 ttgtcgttgg gggtagtgta agcgactgaa aaacaaacgc ccctgaaatt cgtgtctatc
     5101 cgccaagact ttcacgaaaa tacaggggcg atgtcggtcg ataacctgga aggaatcgta
     5161 acac
//
