LOCUS       CP125062                4773 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KFS-B43 plasmid pKFS-B43_4, complete
            sequence.
ACCESSION   CP125062
VERSION     CP125062.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598741
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4773)
  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  JOURNAL   Unpublished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 4773)
  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 16:29:33
            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)                     :: 4,819
            CDSs (total)                      :: 4,697
            Genes (coding)                    :: 4,451
            CDSs (with protein)               :: 4,451
            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)              :: 246
            CDSs (without protein)            :: 246
            Pseudo Genes (ambiguous residues) :: 0 of 246
            Pseudo Genes (frameshifted)       :: 71 of 246
            Pseudo Genes (incomplete)         :: 173 of 246
            Pseudo Genes (internal stop)      :: 46 of 246
            Pseudo Genes (multiple problems)  :: 46 of 246
            Pseudo Genes (short protein)      :: 4 of 246
            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..4773
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFS-B43"
                     /isolation_source="Fecal sludge"
                     /db_xref="taxon:562"
                     /plasmid="pKFS-B43_4"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            complement(351..818)
                     /locus_tag="QL135_24035"
     CDS             complement(351..818)
                     /locus_tag="QL135_24035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHJ95979.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYTTVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     gene            1354..1905
                     /locus_tag="QL135_24040"
     CDS             1354..1905
                     /locus_tag="QL135_24040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHJ95980.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(2104..2319)
                     /locus_tag="QL135_24045"
     CDS             complement(2104..2319)
                     /locus_tag="QL135_24045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WHJ95981.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2323..2808)
                     /locus_tag="QL135_24050"
     CDS             complement(2323..2808)
                     /locus_tag="QL135_24050"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WHJ95982.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(2843..3277)
                     /locus_tag="QL135_24055"
                     /pseudo=""
     CDS             complement(2843..3277)
                     /locus_tag="QL135_24055"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(3486..3809)
                     /locus_tag="QL135_24060"
     CDS             complement(3486..3809)
                     /locus_tag="QL135_24060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WHJ95983.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(3911..4098)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.864"
                     /coverage="87.0"
                     /evalue="5.83e-49"
     Typing          4044..4556
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.829"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2001..3496)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.385"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 catttctgat attcacagca gaataactgt taggatatag ggtatctata gccaggagct
       61 tcaagaaatc cagacacagc aatggattcc agggttatcg aaaaaaatta gtatataggt
      121 tgcaaccaaa atgttggttg caaatctaca tcacgatgtt tatgattatt gtactgcaag
      181 agcattcgca gggggcatca accagtaata ggccttctgt gccgggcagt cagatggctg
      241 gtcatctgcc gggtagttac gacaagcgtc ggtttctgaa ccctatgtgc taaggaaatg
      301 ctgcgactac caacgaattc ataaagggcg ctttttagcg ccctattttt ttattcaata
      361 tgaccaacca aagtaccgtg cgccgtcctt cgtgtgtacg cagtcacaac gacatagatc
      421 caacctgact cagtttcagg cgcttctctg ggctcaagaa ttacgatgcc taccgacgac
      481 tttagcactg caggccgatg tttaccgctt gtactgttga actcgcaata tattggtacg
      541 ccacgacgaa taatatcccg gacaaaacga gccacatcat taacggtcgt atatcccagc
      601 ttaaccagtt cctgctcgtg ctcagcccag atatggcgaa caccaaagcc ccggttaggg
      661 ccagtatgcc taccaacacg caagaagatg tcgccagcag gaataacatc acctttagaa
      721 ttaatttcag ggacacggcc atagcaatca agcccatcag ggtgagctat agcgctgtta
      781 ggtgaaccag ctacaccgta attgtttgga gcaggcacaa aacgatcctt attgagtaga
      841 gtccgcatat ggtaccagag aggaaacaag cggaaggagc ccaagaaaaa agcagagacg
      901 ataaaaagaa tccttatgga ttattttttt gtcctttcat ccttggcgca taaggatatc
      961 acacctgaaa atgtgacgtg cgaatcgccc tagcagctag atttaccata acatcccttg
     1021 cccgcaccgc tccggacggg ttcagcgtga aagcggcgtt agcccggtaa aaccggcagt
     1081 aaactccccg ctaaaccgcg cattctgcgc ctgataaatt tcacgcggct gcatagccat
     1141 gcagccacgt gaatggctca tgctttcaat gtatatcctc gtccaagccc ctgttttaac
     1201 cggtttatca aaaaaacaaa caggaagcct tatcactaac aataaaagag gtagggggct
     1261 gcattttatc gcataaaaaa catttacaac acgaattcta tcgtatagat ttcataaaaa
     1321 aatgaaattg actcacctat taagggtttc tatatgaaag atatgaaagc tgttgtggtt
     1381 tttaccggga aggatttgaa cataatgaga accgaggggg ggtcaggcta ctggcatgcc
     1441 agaacagaca ggctcaacga tgccgattac ctcatagcag taagaaacag aagggaaacg
     1501 tgggcagtaa aagacctgga acacggcaca gcattcctga tcgccaaaat taccgggtgt
     1561 tttaaaagcc ctgattacga cgacaggaac gtcataacct ttgatgaata cgcagaaatt
     1621 cacactccaa aagcatggaa aatgctaacc gatggtcagc gctatccggt tgcttacctg
     1681 agcgcacagg aagctttttt acgtattggg gtaacaccgg aacaactgga atggaagaaa
     1741 ttccatcctt catccccatc ggttcctaat acagtgattc ctggtctggc tgaagagaaa
     1801 acagaaaaac tctcccttaa cgaggcaatt gaaagagcca aaaaggatat tagcaacgca
     1861 acagggattg atagctcagc cataacaata agcatcaaga tctgatgaag cgtgaacaac
     1921 aagatagcag cctcatgttc tagaactgaa cctgtgcgcc agaaacagca agcccatgct
     1981 tttccggcgc acagattcaa agtgacggac cgttgtacgt tcgctgtcgc tgagatcgtt
     2041 ccagctccag cgctttctga tgctgcgccg cccgttcctg ctcacgatgt gcctctatca
     2101 cgttcagcct tgtgacaacc ggcgcagctg ctcgctcaaa ctctgcacct gcctgctcaa
     2161 gcccgtgacg cgctcgctca gcgccgcgtt ctcccgttgc ataagaccaa acatcgtccg
     2221 ccattccgcg aaggcgttct cccactcgtc cagccttttc gagtagtcct gctgtagctg
     2281 ctctaatgcg ctcagcaact gtttttccag ctccgtcatg tgctatttcc ccgccagtat
     2341 catccagctc gaatcctctc cgaaccgtcc cgcttccggg ttcaccctca cgcagcgccg
     2401 tctctgctct ccgcaggtcg agagctgcac gccgctgttc ctctcggaca gcatggcctg
     2461 cgtgctcttc tgctcccgga tgatcgtgta attgtcgagt atctgctgcc cctgccacca
     2521 tagaatgctt gcgcccgatg ctgtcagcag tgtagacacc aggacgatgg tcagccacgt
     2581 ctggctgacc atacgcacca tgcctttcgt gcgctggctc atggctgagg acagcttccg
     2641 gtcgtggtcg aggatggcgg cgctgattct cttctcgctt tcgctcagtt ccgctctgac
     2701 aaacttctcg tgctcgctga atgcgacttt cagcatctcg ccggtactct gctgctgcgc
     2761 tttcgatttc tgctctaagt ccttcgccag cgttaaaaga ctgttcatag atggctccct
     2821 tcagtcggat gtttcgcccc ccgtccgggt cggcaatgct gatgctgctt tttgtggtgc
     2881 gcaccacctc aaaacctgcg ctttctagcg cctcagtgac gtcctggcgg gttttcagct
     2941 ccccggacga ggctaaggcc agtaaacccc gtgtaattgc ctgagcggct tcctgcttcg
     3001 ttttcggcag cgcggacggc gtgaccagcg cccgccggtt ttcaggcgcg ttcgggtcat
     3061 gcagccccag cctgccgttc acgatggtct gccaggcatc aatgcgcgga cggtcggcgc
     3121 ggtcgtaata cggctggaga cgcctgcctg tcagcagctc catgttcggg atcaggaagt
     3181 tcagctccag ccgcccctta tcctggtgct caacccatag cacgctgtac tggtctttat
     3241 cgagtccggg catcagaacc cgttcaaagc tcgccatcag cttttcgcgc tgcccgggcg
     3301 gtaaatcctt ttcggcaaag gacaggacgc cggatgtgta cttttttgcg tagggcgagg
     3361 cgtcgataag ctccctgact tcttccggct tcccctgcag aacggtggcg ccgtcgcgct
     3421 gtcggtcttt ccccagcaga taatccaccg gaccggcgcc accgccgcgc cctcgcgggt
     3481 gaaacttaac gatcatcgtc tgcacccttt tccagcacgg catgccgcag ccgctcgagt
     3541 ccggcatcta tggccatcag cgcggcgacg acctgcacgc ggtcgtgccc gctgccgcca
     3601 ccggcgttaa cctgccgggc aatctggttg aggttattcc ccatgccggc aagctgacga
     3661 agcagcgccg gcgagattga gggaagcttg ccggcgcggg cgggtttctc ggccaggcac
     3721 gtctggcgca tccaggctgc aagctgttta ccgtcgcagc gttccagcag acggcggtgc
     3781 tcatcttcgg tcacccacat ggtgagcatc ttgttccgtt tctctgacaa accgatctcc
     3841 tgataacgcc gggacgggcg ggaaatcttt tcccggtcgg cgcggtgttg gacaagccgc
     3901 aggcgcgtca gtggttttag caggtttcgg ggcgcagccc tgaaccagtc acgtagcgct
     3961 agcggagtgt atactggctc aatatgttac ggcggagtaa cacgtaatga aagtgcttca
     4021 tgtggcaggg gaaaaatgca gctgcagggc gtacaggaga aaatggaggt tacggtgata
     4081 tgacgcctcc tcgctcactc ggtcgcttcc gctcctgacg ttcggctgcg gcgggcgtta
     4141 cctgcaaacg gataagagca aaggcatacg gcatggcaag caggacagga aaaggatgcg
     4201 gcgctgccgt ttttccatag gctccgcccc cctgacaagc atcacgaaat ctgacgctca
     4261 aatcagtggt ggcgaaaccc gacaggactt aaagatacca ggcgtttccc cctggtggct
     4321 ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg tgtcattccg ctgttatggc
     4381 cgcgtttatc tcattccacg cctgacactc agttccgggt aggcagttcg ctccaagctg
     4441 gactgtatgc acgaaccccc cgttcagtcc gaccgctgcg ccttgtccgg taactatcgt
     4501 cttgagtcca acccggatag acacgactaa tcgccattgg caacggccac tggtaagcag
     4561 gatgtgcgag agatgtaacg agagttcttg aagtggcggc ctaactgagg ctacactgaa
     4621 aggacagtat ttggtgacat gtctcgcaca agactgttac cacggttaga gaatctgcca
     4681 ggattaacta accttcgaaa aaaccacctg ccagggtggt tttttcgttt ctgagcaaga
     4741 gactacgacg agtcactgat gatctcaagt gtt
//
