LOCUS       CP125049                4073 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KFS-C10 plasmid pKFS-C10_5, complete
            sequence.
ACCESSION   CP125049
VERSION     CP125049.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598743
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  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  JOURNAL   Unpublished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 4073)
  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 16:59:26
            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)                     :: 4,998
            CDSs (total)                      :: 4,876
            Genes (coding)                    :: 4,619
            CDSs (with protein)               :: 4,619
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 86 of 257
            Pseudo Genes (incomplete)         :: 177 of 257
            Pseudo Genes (internal stop)      :: 48 of 257
            Pseudo Genes (multiple problems)  :: 52 of 257
            Pseudo Genes (short protein)      :: 4 of 257
            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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFS-C10"
                     /isolation_source="Fecal sludge"
                     /db_xref="taxon:562"
                     /plasmid="pKFS-C10_5"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            join(2119..4073,1..193)
                     /gene="mobQ"
                     /locus_tag="QL142_24935"
     CDS             join(2119..4073,1..193)
                     /gene="mobQ"
                     /locus_tag="QL142_24935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WHJ45407.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(451..1152)
                     /locus_tag="QL142_24940"
     CDS             complement(451..1152)
                     /locus_tag="QL142_24940"
                     /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="WHJ45408.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1686..1940)
                     /gene="mobC"
                     /locus_tag="QL142_24945"
     CDS             complement(1686..1940)
                     /gene="mobC"
                     /locus_tag="QL142_24945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WHJ45409.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(1942..2118)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2119..2477
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(452..1152)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2033..4071
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.199"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 accagaactg atgcagtttc atctgaaaac ccgtgaggca ccgctttttg ctgccgtcaa
       61 cacaccagaa aaacagccgg atcatctgtt ccgctcgctg ggttttaatc gtacctggga
      121 ggaatggcag cgcgaggaag atgcacgaac acacaccacc gagaggagac atgatcgcgg
      181 ttggtcacag tgaatgtgaa caatattttg ttttgtttaa catcgtgtta tgttcgtcga
      241 tgttcttcga tgttcatcga cagggatgaa tgcaagaagc acactcacat aacgcaagca
      301 tagttttgtt tttccgcccc caaaaattgg ggggtctttt ttcgctgcat cagagcgttt
      361 ttgacgcaat ttttcacttc aatagtacct tcgcactact aacacaaaaa aaacgcagca
      421 gggagcgttt taggtgcctt aaaatcgatt ttagatcgtc atcttgatct gtttgtcttc
      481 cttgaagcga aaatgcaggg ctacaaccgt gcgccccttt ttgatcgtct caacagttac
      541 aaccagatcg cttttttcgt tcagttcggc gatggctggc ttgattatca tcttattcaa
      601 gtctttgaat tgttgatatt tatcttcaac ggcaagcatg gttcggaaat catcgatagc
      661 tatcgttctg tcaccggtgc tgcggaactg ctggagcagc tcgtaaatgc ggatgctgta
      721 ggtgctggaa aggctggaga cgttcttcac gactacccgc gtaaactgcc ccttgagctg
      781 tgtcagatac ggcatgatgg catcggagaa ggtgatatct actttcgcct cacctttgaa
      841 atactgcgcc cggtactgca cccagcggaa ctcttctcgt ttttcctcgt tcttgatgat
      901 tactgacctg tcccagaggc gatctatcgc ttccttgagc ctagcttcag cgtgctgccg
      961 tcccatgtca ggaaaggcat catgaaactc tgcagccgtg atggtcatgg ttttttgttc
     1021 atccggcgaa ggggaatctt ctccggattt taggcggctg atacagacca gcaggaagcg
     1081 ctgttcctgc aaagtgagct tgtagcttgc ctcgataagg gcgtttgatt tgtaagctat
     1141 cagatctgac atttcgcttg ctcgttgcta ttggtggcgt ttttttactg tacgccactt
     1201 atcatatggg tggaagtttt ttttttgcaa cccccttttt ctgtggatta cacccccaaa
     1261 agctccacct ttcaccccca aaagctccac ctttcacccc caaaagctcc acctttcacc
     1321 cccaaaagct ccacttatct tgccagaaca tctttaaaat catggtgtta caagacctaa
     1381 aaaggtttta aaaaaaaaga tctaaaaata agatcttaaa aacttaacgg cgagcctgtg
     1441 gataacttgg ggtgctgaaa acaaaaaacc aataaaaaca atgcgttgca ataaagcaga
     1501 attgcaagtt tcgaatacac cccctccaac cctgtggaaa cccagtattc atgcgggttc
     1561 agcgcatatc acctgccgaa aaaccgtgcg tatgtgctca acctggcgac tgattcactt
     1621 ccgcttcctc gcccactcgc tcgctaacgc tcggtcgctg gggctgcggc gagcggacga
     1681 tacaatcact gttctggcag cgcctccagc tcgttaatca gcggcagtat gcgcgtcaca
     1741 tcagcctgtc gtgtcacctc tgccttcagg aactggagta accaggcacg caactgcacc
     1801 tcctccggct ttctgacctt tgccagcaat gcagcaccca caacaacctt ctgcgctgtg
     1861 tccaggctcc ggctcttcgc cttcaggcgc tgtaatctcg cctcagcatc agcaatcttc
     1921 tgttcgagcg ttctgctcat gatgtaactc cgtgcgcgat gaaaaatcgc attttagcgc
     1981 gtcactggta gtttaaaaac tgagctggca taatgcacgg caaatcacga agtgcgcact
     2041 tatacaatct ccactccgtt tcgattgtgt gcgccctgcg gggctgaaag aaaactacaa
     2101 aaaggcatta cggcagaaat ggcgatttat catctcagca tgaaaattat ctccagaagc
     2161 agcggctaca gcgccgtagc ttccgctgcc tatcgttccg gttcactgat gcttgatgag
     2221 cgtaccggac tgactcacga ctacacccgc aaaagcggtg tggctgaggc tgtgattctg
     2281 acccccgcca ccgcccctgc ctggtgtacg aaccgtgccg aactctggaa tgccgttgag
     2341 aaggccgaac gccggaagaa ctcacaactt gcgcgggaaa ttgaactcgc catcccccac
     2401 gaactgccgc aggatgccgc acgggaaacc gttctcgcct ttgtcagaga aaactttgtc
     2461 agtcagggca tgattgctga tgtggcgttc catcacatgg ataaaacaaa tccccatgcg
     2521 cacatcatgc tgaccacgag ggctatcgga cctgctgggt tcagcggaaa ggtcagggac
     2581 tggaacgacc ggacacatgc cgagacgtgg cgggcatcat gggctgacca tgcaaacagg
     2641 gcactggcga acgccggtta tcaggaagag atagaccatc gttcatacga gcgacagggg
     2701 cttgagaaaa cgcctggtat tcacctcgga aagtctgcct gtgcgatgga aacacgcggt
     2761 atcgaaacag aacgcggcga acagaatcgt ctgattaaca ggcttaacct ggaaatacag
     2821 atttcccgca ccgaactcag gaacggaggg ctgacagagc ctgcccgccg tgtggctgac
     2881 cttctgaata tcgggcttcc tgacaacgca acttcgtaca cactacgtga cattatcgaa
     2941 gcgttgccga aggacagtaa ctcggcatgg aaactcacca gtaatgccat gtcgatgatg
     3001 gcagatatgc aggcgacgcg cagacgctgg gaagagctga acaccgaacg aaaggaagcg
     3061 atgagccatg ctgccagcct gaaaaaatca tcgccgtttt cgtccggttt ttcccgtatt
     3121 cccctgatgc aatgggcggc accggaatac cgtagtgagc agggaaaaat ccagtctctg
     3181 agccagcaaa tggaaaaatt acgacagcat taccggaagg tggagaaaca ggacattccc
     3241 gcgagtcaga tggcatttga aaaacagtgg cagcagtggg gggaatccgg ccttgcagct
     3301 ctcagagccc agttgcttaa acgtgaagag gaattgcgcc ggaaggaaca ggaagatact
     3361 gaacgtagtc gcgcggagca gctcaggaaa aatgacaatg ccgttatgga ttcaggggtg
     3421 ctgagagcag tcgttacggg gtatggcgag gctcccatgc ctggtaacgg ggaaatgacc
     3481 tgttaccttc tgcttcacaa ccggaacgga gaatatacgc tctgggggaa cgagctggag
     3541 aaataccgca ccagaatctt tgagagtgtt gatttaatgc gtgacaggag tggttatatc
     3601 tgtgaccgaa gcgaaatcgg ccaacgtccg ccactgcaac gtgtttattc ctctgcaacc
     3661 tttgagcaac tgctgacgca ggtttgccag acatggccgc aacatacccg caatctccgc
     3721 cagccgaaga catggccgga gtctttctgt cttggagaag accgccagcc agccatgcca
     3781 tcaccagcgg caaggaaggt ggattttatg cagggacgtc tgccaccgac gctgatgccg
     3841 gtcatgagtt ctgtcgaccg ggaaacccgc cagcttcagc ttttgctggt catgggcgtg
     3901 gatgactctc tgggcggtgt tatccggctt aatggtacgc tgtatcccgc gtttgccgtt
     3961 ccctcagccg ataacaggca tctggtcatc agtgcgctga ccgataaggg gttacggtat
     4021 gcagggtatg gtgttgccgt aaatcacgat gcagacagcc acatatcacc tgc
//
