LOCUS       CP125069                5119 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KFS-B24 plasmid pKFS-B24_5, complete
            sequence.
ACCESSION   CP125069
VERSION     CP125069.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598740
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5119)
  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  JOURNAL   Unpublished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 5119)
  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..5119
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFS-B24"
                     /isolation_source="Fecal sludge"
                     /db_xref="taxon:562"
                     /plasmid="pKFS-B24_5"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            join(4489..5119,1..842)
                     /locus_tag="QL139_25550"
     CDS             join(4489..5119,1..842)
                     /locus_tag="QL139_25550"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_159421185.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_component:
                     GO:0016020 - membrane [Evidence IEA]; GO_process:
                     GO:0019835 - cytolysis [Evidence IEA]; GO_process:
                     GO:0050829 - defense response to Gram-negative bacterium
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like pore-forming protein"
                     /protein_id="WHK00773.1"
                     /translation="MDKVTDNSPDVESTESTEGSFPTVGVDTGDTITATLATGTENVGG
                     GGGAFGGASESSAAIHATAKWSTAQLKKHQAEQAARAAAAEAALAKAKSQRDALTQRLK
                     DIVNDALRANAARSPSVTDLAHANNMAMQAEAERLRLAKAEQKAREEAEAAEKALREAE
                     RQRDEIARQQAETAHLLAMAEAAEAEKNRQDSLDEEHRAVEVAEKKLAEAKAELAKAES
                     DVQSKQAIVSRVAGELENAQKSVDVKVTGFPGWRDVQKKLERQLQDKKNEYSSVTNALN
                     SAVSIRDAKKTDVQNAEIKLKEAKDALEKSQVKDSVDTMVGFYQYITEQYGEKYSRIAQ
                     DLAEKAKGSKFSSVDEALAAFEKYKNVLDKKISKVDRDAIFNALESVNYDELSKNLTKI
                     SKSLKITSRVSFLYDVGSDFKNAIETGNWRPLFVTLEKSAVDVGVAKIVALMFSFIVGV
                     PLGFWGIAIVTGIVSSYIGDDELNKLNELLGI"
                     /name="colicin-like pore-forming protein"
     gene            complement(839..1129)
                     /gene="cki"
                     /locus_tag="QL139_25555"
     CDS             complement(839..1129)
                     /gene="cki"
                     /locus_tag="QL139_25555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011264161.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin K immunity protein"
                     /protein_id="WHK00774.1"
                     /translation="MHLKYYLHNLPESLIPWILILIFNDNDNTPLLFIFISSIHVLLYP
                     YSKLTISRYIKENTKLKKEPWYLCKLSALFYLLMAIPVGLPSFIYYTLKRN"
                     /name="cki"
     gene            1159..1290
                     /locus_tag="QL139_25560"
     CDS             1159..1290
                     /locus_tag="QL139_25560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_072023513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_component:
                     GO:0019867 - outer membrane [Evidence IEA]; GO_process:
                     GO:0019835 - cytolysis [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WHK00775.1"
                     /translation="MKIIIFLITILFLSGCQANYIRDVQGGTVAPSSSSELTGIAVQ"
                     /name="colicin release lysis protein"
     gene            complement(1485..1628)
                     /locus_tag="QL139_25565"
     CDS             complement(1485..1628)
                     /locus_tag="QL139_25565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001422066.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WHK00776.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLAAAIGNWIVDLDTQ
                     NS"
                     /name="replication initiation protein"
     gene            complement(2115..2309)
                     /locus_tag="QL139_25570"
     CDS             complement(2115..2309)
                     /locus_tag="QL139_25570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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="WHK00777.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2593..2916
                     /gene="mobA"
                     /locus_tag="QL139_25575"
     CDS             2593..2916
                     /gene="mobA"
                     /locus_tag="QL139_25575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_process:
                     GO:0006355 - regulation of DNA-templated transcription
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WHK00769.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(3140..3562)
                     /locus_tag="QL139_25580"
     CDS             complement(3140..3562)
                     /locus_tag="QL139_25580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001255518.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WHK00770.1"
                     /translation="MRSAAARLLLIPLITATIALTGCTPKTSLERHTRHYVYASDDGFD
                     PNFYTQKADTIRMMLPFFQQFRDMGMKDKAAGVSAETAQQRVKEFHSEKFFHSLRSTTT
                     FAGRKYTNSDMPSPKKMKLMADTISAVYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     gene            3684..3962
                     /locus_tag="QL139_25585"
     CDS             3684..3962
                     /locus_tag="QL139_25585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000710672.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHK00771.1"
                     /translation="MKKCVPVLLFSVLSASVASHADSNVFQQKAEKTKNGIVADVNARQ
                     KMFSNRLKIQLQIDELRAELAGTRDAQKREDLRKKLESLERQKKSLR"
                     /name="hypothetical protein"
     gene            complement(3954..4244)
                     /locus_tag="QL139_25590"
     CDS             complement(3954..4244)
                     /locus_tag="QL139_25590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001672407.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHK00772.1"
                     /translation="MSKSPRHKLNKTDKRLLDTLVAAGYEHDKARDLIQKQVYTLTLAD
                     QRHVVSEISNGVNPTQAYSAVYQARRIRLARKYLNGKKVMEETGENTPPSA"
                     /name="hypothetical protein"
     Typing          2345..2584
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          complement(1557..2086)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.776"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          2594..2913
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.11e-62"
ORIGIN
        1 ctgaggctaa agctgaactg gcgaaggccg aaagcgatgt acagagtaag caagcgattg
       61 tttccagagt tgcaggggag cttgaaaacg ctcaaaaaag tgttgatgtg aaggttactg
      121 gatttcctgg atggcgtgat gttcagaaaa aactggagag acaattgcag gataagaaga
      181 atgaatattc gtcagtgacg aatgctctta attctgcggt tagcattaga gatgctaaaa
      241 aaacagatgt tcagaatgct gagataaaat taaaagaagc taaggatgct cttgagaaga
      301 gtcaggtaaa agactctgtt gatactatgg ttgggtttta tcaatatata accgaacaat
      361 atggggaaaa atattccaga atagctcagg atttagctga aaaggcgaag ggtagtaaat
      421 ttagtagtgt tgatgaagct cttgctgcat ttgaaaagta taaaaatgta ctggataaga
      481 aaatcagtaa ggttgatcgg gatgctattt ttaatgcgtt agagtctgtt aattatgatg
      541 agttatctaa gaatttaacg aagatatcaa agtcgcttaa aatcactagt cgagtatctt
      601 ttctatatga tgttggttct gattttaaaa atgcaataga aactggtaac tggcgacctt
      661 tgtttgtcac gctggagaaa agtgcggtcg atgtaggtgt ggcaaaaatt gtggcattaa
      721 tgtttagttt tattgttggt gtgcctcttg gtttctgggg gattgcaatt gtcacaggta
      781 ttgtttcttc ttacataggg gatgatgagt tgaacaaact taatgagttg ttagggattt
      841 aatttctctt tagagtgtaa tatatgaaac ttggcaatcc tactgggatt gccattaata
      901 aataaaacaa tgcagataac ttgcataagt accagggttc tttttttaac tttgtatttt
      961 ctttgatata tctagatatg gttaatttag agtatggata tagcaataca tgtattgatg
     1021 atataaatat aaataacaaa ggagtgttat cattgtcgtt aaatattaaa ataagaatcc
     1081 atggtataag tgattcaggt aaattatgta ggtagtattt taaatgcata agtattttta
     1141 cttttgttgg aaagaaatat gaaaataata atttttctaa ttacaatatt attcttgtca
     1201 ggatgtcaag caaactatat tcgtgatgtg caaggaggaa ccgttgcacc atcttcgtct
     1261 tctgaactga cggggatcgc ggttcagtag aaaagatcaa aggatcttct tgagatcctt
     1321 tttttctgcg cgtaatctgc tgcctgtaaa cgaaaaaacc gcctggggag gcggtttagt
     1381 cgaaggttaa gtcagttggg gactgcttaa ccgggtaact ggctttagtg gagcacagat
     1441 accaaatgct gtccttccag tgtagccgct ataaggcttc aacttcaaga gttctgcgta
     1501 tctaaatcca ctatccagtt accaatggct gctgccagtg gcgttaagtc gtgtcttacc
     1561 gggttggact caagacgata gttaccggat aaggcgcagc ggtcgggctg aacggggggt
     1621 tcgtgcacac agcccagctt ggagcgaacg acctacaccg aactgagata ccaacagcgt
     1681 gagctatgag aaagcgccac gcttcccgaa gggagaaagg cggacaggta tccggtaagc
     1741 ggcagggtcg gaacaggaga gcgcacgagg gagcttccgg ggggaaacgc ctggtatctt
     1801 tatagtcctg tcgggtttcg ccacctctgg cttgagcgtc gatttttgtg atgctcgtca
     1861 ggggggcgga gcctatggaa aaacgcctgc ggcgctggct tcttccggtg ctttgctttt
     1921 tgctcacatg ttctttccgg cgttatcccc tgattctgtg gataaccgta ttactgcttt
     1981 tgagtgagct gacaccgctc gccgcagtcg aacgtccgag cgtagcgagt cagtgagcga
     2041 ggaagcggaa gagcgcctta tgtgacattt tctccttacg ctctgttgtg ccgttcggca
     2101 tcctgtcctg agcgttatct ctctgtgcta ttttctactt caaagcgtgt ctggatgctg
     2161 ttctggagtt cttctgcgag ttcgtgcagc ttctcacaca tggtagcctg ttcgtcagca
     2221 tcgagggcgt ccagcttttc gagcagcgtc aggctttggc tttttatgaa tcctgccatg
     2281 ttgagtacgg cttgctgctg cttgttcatc ttttcgtttt ctccgttctg tctgtcatct
     2341 gcgttgtgtg attatatcgc gtaccacttt tcgactgttt taccgccggt attctgccgt
     2401 ctgacgcttt gacgggtatt tctgcctgac aatactgtca ctgccaaaaa actgccgtgc
     2461 ctttgtcggt aattcgaact tgctgacagg acaggatgtg taattgttat accgcgcata
     2521 catgcacgct attacaatta ccctggtcag ggctttgccc cgacacccat gtcagatacg
     2581 gagccatgtt ttatgacaaa acgaagtgga agtaatacgc gcaggcgggc tatcagtcgc
     2641 cctgttcgtc tgacggcaga agaagaccag gaaatcagaa aaagggctgc tgaatgcggc
     2701 aagaccgttt ccggtttttt acgggcggca gctctcggta agaaagttaa ctcactgact
     2761 gatgatcggg tactgaaaga agttatgaga ctgggggcgt tacagaaaaa actctttatc
     2821 gacggcaagc gtgtcgggga cagggagtat gcggaggtgc tgatcgctat tacggagtat
     2881 caccgtgccc tgttatccag gcttatggca gattagcttc ccggagagaa aactgtcgaa
     2941 aactgacggt atgaacaccg taagctccca aagtgatcac cattcgcttt catgcatagc
     3001 tatgcagcga gctgaaaacg atcctgacgc atccttcctg tttttccggg gtaaaacatc
     3061 tctttttgcg gtgtctgcgt cagaatcgcg ttcagcgcgt ttcagtggtg cgtacaatta
     3121 agggattatg gtaaatccct tactgtctgc cctcgtatcc atcgagataa accgcagaaa
     3181 tggtgtctgc cattagtttc atttttttcg gcgaaggcat atcgctgttt gtgtattttc
     3241 tgccagcaaa ggttgtagtg ctccggagtg agtgaaaaaa tttttctgag tggaattctt
     3301 ttacacgttg ctgtgccgtt tctgctgata ctccggctgc tttgtctttc atccccatat
     3361 cccggaactg ctgaaagaac gggagcatca tacgtatggt gtctgctttc tgggtgtaga
     3421 agttaggatc aaatccatca tctgaagcat aaacataatg ccgggtatgt cgttccaggc
     3481 tggtctttgg tgtgcatcct gtaagagcta ttgttgctgt tatcagaggt atcagaagca
     3541 gcctggcagc ggcagatctc ataaacatct ccttgcgttt ttaatattga tactcaggga
     3601 gttatatctc cgaagagtat ctcttatcat acgtcggttt actcccaatg tgatttgatg
     3661 gtcaatgagt caggaataat cccgtgaaaa aatgtgtgcc agtcctgctt tttagtgttc
     3721 tttctgcttc ggttgccagt catgcggaca gcaatgtttt tcaacaaaag gccgagaaga
     3781 caaaaaacgg cattgttgcg gatgttaatg ccagacagaa aatgttcagt aacagactga
     3841 agatacaact tcagatcgat gagttgagag cagagctggc tggcaccaga gatgcccaaa
     3901 aaagagagga tttgcgtaaa aaactggagt ctctggagcg gcaaaagaaa tccttacgct
     3961 gatgggggcg tattttcccc ggtttcttcc ataacctttt taccgttcag atatttacgg
     4021 gcgaggcgaa tgcgtcttgc ctggtatacc gccgagtaag cctgggtggg attcacacca
     4081 ttactgattt cactgaccac atgacgctga tctgccagtg tcagcgtgta aacctgtttc
     4141 tggatgaggt cacgggcttt gtcatgctca tatccggcag caacaagggt gtcgagaagt
     4201 cgtttgtctg ttttgttcag tttatggcgg ggtgatttgc tcacatcgtt ctccgttttt
     4261 tcatgatcca acagttttat atctcatcct gatttgctcc ggtgttctgt ttcgacgttc
     4321 tcaatgcctg cctccccata gtgtgatcct tattgcaaaa atgaaaatcc atgctcttga
     4381 catggacaat gctgagtagt aggtttttgc tgtacataaa accagtggtt atatgtacag
     4441 tatgttgttt ttaatttatt gttttaatta tcaaagagga atttctttat ggataaagtc
     4501 actgataatt ctccagatgt ggagagcaca gaatctactg aggggtcatt cccaactgtt
     4561 ggggttgata ctggcgatac gattacagcg acgcttgcaa ctggaactga aaatgttggt
     4621 ggaggcggtg gagcatttgg tggggccagt gaaagttctg ctgcgataca tgcaaccgct
     4681 aaatggtcta ccgcgcagtt gaaaaaacat caggctgaac aggctgcccg tgctgctgcg
     4741 gctgaggcag cattggcaaa agcgaaatct cagcgtgatg ccctgactca acgtctcaag
     4801 gatattgtta atgacgcttt acgtgctaat gccgctcgta gtccatcagt aactgacctt
     4861 gctcatgcca ataatatggc aatgcaggca gaggctgagc gtttgcgcct tgcgaaggca
     4921 gagcaaaaag cccgtgaaga agctgaagca gcagaaaaag cgctccggga agcagaacgc
     4981 caacgtgatg agattgcccg ccaacaggct gaaaccgcgc atttgttagc aatggcggag
     5041 gcagcagagg ctgagaaaaa tcgacaggat tctcttgatg aagagcatcg ggctgtggaa
     5101 gtggcagaga agaagctgg
//
