LOCUS       CP125075                3609 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KFS-B20 plasmid pKFS-B20_4, complete
            sequence.
ACCESSION   CP125075
VERSION     CP125075.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598739
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3609)
  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  JOURNAL   Unpublished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 3609)
  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 16:43:06
            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)                     :: 4,671
            CDSs (total)                      :: 4,546
            Genes (coding)                    :: 4,275
            CDSs (with protein)               :: 4,275
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 271
            CDSs (without protein)            :: 271
            Pseudo Genes (ambiguous residues) :: 0 of 271
            Pseudo Genes (frameshifted)       :: 78 of 271
            Pseudo Genes (incomplete)         :: 196 of 271
            Pseudo Genes (internal stop)      :: 44 of 271
            Pseudo Genes (multiple problems)  :: 46 of 271
            Pseudo Genes (short protein)      :: 4 of 271
            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..3609
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFS-B20"
                     /isolation_source="Fecal sludge"
                     /db_xref="taxon:562"
                     /plasmid="pKFS-B20_4"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            join(3381..3609,1..95)
                     /gene="mobA"
                     /locus_tag="QL132_23340"
     CDS             join(3381..3609,1..95)
                     /gene="mobA"
                     /locus_tag="QL132_23340"
                     /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="WHK05053.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRIGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            527..2044
                     /locus_tag="QL132_23345"
     CDS             527..2044
                     /locus_tag="QL132_23345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000739598.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NERD domain-containing protein"
                     /protein_id="WHK05054.1"
                     /translation="MKKNIVRQVLESYGPCISSELAERIKRQNPSMSSDAIRKMISRST
                     DIGKLPFLRFSHNRRFIYLKDDFGSFKFWRALKKCMREANSAYSHAILSVINNGGYLKV
                     KDFGIVSGSPIKQAKHLSYESVLKNLLSAKILRSVYIDGIGDCVLINNNIANDISIFNM
                     ANCESFFDKPIFELIKAWLRNLGIVAFNQIKTKYDGENNPVVGSFEWDITAPSYVSPLA
                     EYSSDGLIPGFVVCDFALGFNRNEITTDAADTFIRKVQMTKSSRTNQRIMFVLFARRFE
                     KNAFNKLRSEGVLAITIANAFGNKVDESLARLSKVIQGTLSIERHPDELLQMVKDLESI
                     SGENGNLRGYIFELFVSSQICNFYGYGNVRINKEYKINGKHAEADVVLETNDDIYIVEC
                     KNVKTLPSMEVSLWMKTRVPIINSYYKSNNPDNKNIHHRLWVTGNIYPKDINRLDEFKC
                     NNKKIDVDYLFGQSLDDFFYQKKQVFNLYRKVISPDYKKGQIPDFDL"
                     /name="NERD domain-containing protein"
     gene            complement(2249..2407)
                     /locus_tag="QL132_23350"
     CDS             complement(2249..2407)
                     /locus_tag="QL132_23350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WHK05051.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPKRHDLSPLAAATGNWNSRAMIM
                     RSVLQSS"
                     /name="replication initiation protein"
     gene            complement(2903..3097)
                     /locus_tag="QL132_23355"
     CDS             complement(2903..3097)
                     /locus_tag="QL132_23355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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="WHK05052.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAESGTGV"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          3133..3372
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          complement(2340..2860)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.905"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          3382..3608
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="1.28e-41"
ORIGIN
        1 acggcaagcg tatcggggac agggagtatg cggaggtgct gatcgctatt acggagtatc
       61 accgtgccct gttatccagg cttatggcag attagcttcc cggggagaaa actgttgaaa
      121 acagacggta tgaacaccgt aagctcccaa agtgatcacc attcgctttc atgcataact
      181 atgcagcgag ctgaaaacga tcctgacgca tccttcctat ttttccgggg taaaacatct
      241 ctttttgcgg tgtctgcgtc agaatcgcgt tcagcgcgtt tcagtggtgc gtacaattaa
      301 gggattatgg taaatagggc ggttgatata tgatgatgaa atgtcacaaa cgtaacatct
      361 tgatttttaa ggataaatct cgcaggtgtg ttttttgtga tatgttgctt ttgttaaatg
      421 tttgattttt atgatttttt tctttgtgtt tttttttggg atctatagat attacacgta
      481 gtgtaatttt ataaatagcg tagtgtgaca aaaataagat gaatttatga aaaaaaacat
      541 tgttagacaa gtgcttgaga gttatggtcc gtgcatatct tctgaacttg ctgagaggat
      601 taagcgtcag aatccttcta tgtcatctga tgcaatacgt aaaatgatct ctcgaagcac
      661 tgatattggt aagttgccat ttttaagatt tagtcataac aggagattca tttatctaaa
      721 agatgacttt ggtagcttca aattttggcg ggcgctcaaa aaatgtatgc gtgaggcaaa
      781 ttcggcgtat tctcacgcta tactttccgt aattaataat ggcggatact tgaaggtaaa
      841 ggatttcggg attgtgtctg gctctccgat aaagcaggcc aagcatttaa gttatgaatc
      901 tgttctaaaa aatctgcttt cagctaaaat acttagatct gtgtatattg atggtattgg
      961 tgattgtgtt ttgataaata ataatatagc taatgatatc agcatcttta atatggcaaa
     1021 ttgcgagtct ttttttgata agccaatatt tgaactgatt aaggcatggt tgcgaaattt
     1081 aggtattgtg gcttttaatc aaataaaaac aaaatatgat ggagagaaca atcctgtggt
     1141 tggttctttc gagtgggata taacagcgcc aagttatgtg tcccctcttg ctgaatattc
     1201 cagcgatgga ctcatcccag gttttgttgt ctgtgatttt gctctagggt ttaatcgaaa
     1261 tgaaattacc accgatgctg ctgatacctt cataagaaaa gttcagatga ccaagtcctc
     1321 taggacaaac cagaggatta tgtttgttct ttttgctaga cgttttgaga agaatgcctt
     1381 caacaagcta aggagtgaag gggttctggc tataactata gctaatgcgt ttggtaataa
     1441 ggtcgatgag agcttggcca gactatcgaa ggtgattcag ggaactttat ctattgaaag
     1501 acatcctgat gagttacttc aaatggtaaa agatctggag tctatctctg gagagaatgg
     1561 aaatttaagg gggtatattt ttgagctttt tgtttcctct caaatttgta atttctatgg
     1621 ttatggaaat gttcgtatta ataaagaata taaaataaac ggtaaacatg ccgaagctga
     1681 tgttgtattg gaaactaacg atgatattta tatcgttgag tgcaaaaatg ttaagacttt
     1741 accttcgatg gaggttagtc tttggatgaa aacaagagtg ccaattataa attcctacta
     1801 caaatcaaat aaccctgata acaaaaatat acatcatcgt ttgtgggtta cggggaatat
     1861 atatcctaaa gatataaacc gattggacga gtttaaatgt aataataaga agattgatgt
     1921 tgattattta tttggtcagt ctttggatga ttttttctac caaaaaaaac aagtgtttaa
     1981 tttatatagg aaagtcattt cgccagatta taaaaaaggg caaatacccg attttgactt
     2041 atagaatgac gttttctagt ctctgcattt cttgacgatg acggcttgaa aagcgtatct
     2101 tcctccatga aacgaaaaaa ccacccggca aggtggtttt tcgaaggtta gttaatcctg
     2161 gcagattacc taacctaggt aactggcttc agcagagcgc agataccaaa tcctgtcctt
     2221 taagtgtagc cgtagttggg gcatcacttc aagaactctg tagtacggac cgcattatca
     2281 tcgctctgct attccagtta ccagtggctg ctgccagtgg cgataagtcg tgtcttttcg
     2341 ggttggactc aagacgatag ttaccggata aggcgcagcg gtcgggctga acggggggtt
     2401 cgtgcacaca gcccagcttg gagcgaacga cctacaccgg gccgagatac caacagcgtg
     2461 agctatgaga aagcgccacg cttcccgaag ggagaaaggc ggacaggtat ccggtaaacg
     2521 gcagggtcgg aacaggagag cgcacgaggg agcttccagg gggaaacgcc tggtatcttt
     2581 atagtcctgt cgggtttcgc cacctctggc ttgagcgtcg atttttgtga tgctcgtcag
     2641 gggggcggag cctatggaaa aacgccaccg gcgcggcctt tttcgggttc ttgttttttg
     2701 ctcacatgtt tcttttggct ttatcccctg attctgtgga taaccgcatt accgtctttg
     2761 agtgagctga taccgctcgc cgcagccgaa cgaccgagcg tagcgagtca gtgagcgagg
     2821 aagcggaaga gcgccttatg tggcattttc tccttacgca ccggtatacc gttctgcatc
     2881 ctgtctggag caggatacac tgttataccc cggtgccact ttccgcttca aagcgtgtct
     2941 gtatgctgtt ctggagttct tccgcgagtt cgtgcagctt ctcacacatg gcggcctgtt
     3001 cgtcggcatc gagtgcgtcc agcttttcga gcagcgtcag gctctggctt tttatgaatc
     3061 ccgccatgtt gagtacggtt tgctgctgct tgttcatctt ttcgttttct ccgttctgtc
     3121 tgtcatctgc gttatgtgat tatatcgcgt accacttttc gactgttttg ctgccgctat
     3181 tctgccgcct ggctttttga cgggcatttc tgtcagacaa cactgtcact gccaaaaaac
     3241 tgccgtgcct ttgtcggtaa ttcgagcttg ctgacaggac aggatgtgca attgttatac
     3301 cgcgcataca tgcacgctat tacaattacc ctggtcaggg ctttgccccg acacccatgt
     3361 cagatacgga gccatgtttt atgacaaaac gaagtggaag taatacgcgc aggcgggcta
     3421 tcagtcgccc tgttcgtctg acggcagaag aagaccagga aatcagaaaa agggctgctg
     3481 aatgcggcaa gaccgtttcc ggttttttac gggcggcagc tctcggtaag aaagttaact
     3541 cactgactga tgatcgggta ctgaaagaag ttatgagact gggggcgtta cagaaaaaac
     3601 tctttatcg
//
