LOCUS       NZ_CP073987             2442 bp    DNA     circular CON 24-AUG-2023
DEFINITION  Escherichia coli strain MB15 plasmid pYLMB15c, complete sequence.
ACCESSION   NZ_CP073987
VERSION     NZ_CP073987.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18877304
            Assembly: GCF_024585685.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2442)
  AUTHORS   Lopez-Dorta,Y., Brilhante,M., Hernandez-Fillor,R.E., Baez,M.,
            Espinosa,I. and Perreten,V.
  TITLE     Molecular epidemiology of Extended-Spectrum Beta-Lactamase-producing
            Escherichia coli from food-producing animals in Cuba using
            whole-genome sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2442)
  AUTHORS   Lopez-Dorta,Y., Brilhante,M. and Perreten,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-APR-2021) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3012, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/24/2023 06:43:53
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,056
            CDSs (total)                      :: 4,938
            Genes (coding)                    :: 4,757
            CDSs (with protein)               :: 4,757
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 181
            CDSs (without protein)            :: 181
            Pseudo Genes (ambiguous residues) :: 0 of 181
            Pseudo Genes (frameshifted)       :: 61 of 181
            Pseudo Genes (incomplete)         :: 111 of 181
            Pseudo Genes (internal stop)      :: 43 of 181
            Pseudo Genes (multiple problems)  :: 35 of 181
            Pseudo Genes (short protein)      :: 2 of 181
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073987.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..2442
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MB15"
                     /isolation_source="Cloacal sample"
                     /host="Poultry"
                     /db_xref="taxon:562"
                     /plasmid="pYLMB15c"
                     /geo_loc_name="Cuba: Santa Cruz del Norte"
                     /collection_date="2015"
                     /genotype="ST155"
                     /note="Broiler"
     gene            complement(join(1489..2442,1..15))
                     /gene="mobV"
                     /locus_tag="KFU92_RS25155"
                     /old_locus_tag="KFU92_24975"
     CDS             complement(join(1489..2442,1..15))
                     /gene="mobV"
                     /locus_tag="KFU92_RS25155"
                     /old_locus_tag="KFU92_24975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_000024818.1"
                     /translation="MANYAIMRCKKLTGMGSVASALQHCYRERETPNANAERTPENYCS
                     VSKSTDQAMGRVRELLPEKRRKDAVLAVEYVMTASPEWWKEATPRQQAEFFARSEQWLE
                     KKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMREDQSTYAESVK
                     KLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPRVLRKGIFTKDVEDQAA
                     IAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKRLQSVTEPFKGLSREQM
                     TEILMMAQRFKQQNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="mobV"
     gene            720..1202
                     /locus_tag="KFU92_RS25160"
                     /old_locus_tag="KFU92_24980"
     CDS             720..1202
                     /locus_tag="KFU92_RS25160"
                     /old_locus_tag="KFU92_24980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001565850.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_223375251.1"
                     /translation="MNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPYVKLYIAD
                     IAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKNIIAALVD
                     KQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVMDDEC"
                     /name="hypothetical protein"
     gene            1189..1419
                     /locus_tag="KFU92_RS25165"
                     /old_locus_tag="KFU92_24985"
     CDS             1189..1419
                     /locus_tag="KFU92_RS25165"
                     /old_locus_tag="KFU92_24985"
                     /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="WP_124788667.1"
                     /translation="MMNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRT
                     SGNKYSTKGLSPKQKNAAFSILKKHNYHLND"
                     /name="hypothetical protein"
     Typing          complement(1493..2442)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.584"
                     /coverage="94.0"
                     /evalue="0.0"
ORIGIN
        1 cgcgtagttc gccatgttcc cccctgattc cggcattcat tcagccaggc gggggagcgc
       61 attgcgatac ctccggcggg ccactatcaa gatgatagtg tactcactag actttgctac
      121 gcaaaatcgt tcgggcagcg agctgccaga aggtcaaaat caacggcggt ctggcaggtg
      181 gaaggcgtcg cttcgcgcca ccccccacca ctgccaagcc tgttttatcc ggagtgtcgt
      241 caagggtaaa tggcactcgc tacgctcgcc cttgacgaaa tcaggcaatg aaatcgtctt
      301 tgaaagagca ggaaccgctc gccgcagctt tggctgaggc gtaccgcagg agcaacgcga
      361 cgaggaacga acagccaaag cgaggaagcg gaatttccac tccccgtaca tagaaatgcg
      421 tacactcctt gctaaaaaaa ggcagttttt cagtgtctaa aaatgccgtt tttcagccct
      481 tattttcccc cttaatatat agatatagat atgggaaccc gcttgtacca agggctagag
      541 cgaagaatcg tactcacctc aagtaccaat cgtactcacc tcaagtacta atcgtactca
      601 cctcaaggac taatcgtact cacctcaagt actaatcgta cttgatacaa aggacttgac
      661 tgtatgtctc tttagtactt aaatgcgagt actaaatcat ggcgaaacgt ggggctggag
      721 tgaatacgaa aaagatttct aggcttgaac ggcatacata catggatgaa aacggtgagg
      781 taaaacaaga ctctaagatc gagacctttt ccatcccagc cgaacctccc tacgtcaagc
      841 tatacattgc agacattgcg atgattcatg gtttatcaaa atctcaaaat gatgtgcttt
      901 tacaattggc aatgctgatt ggatgggatg ggtttgtgtc tgtatcaaaa actagatttg
      961 aaaaaaccat acagcccagg gttcatattg aatatcagac ctttaaaaac ataattgcgg
     1021 ctcttgtaga taaacaaata ttcttccggg cagggcgtgg ggaacttgaa gctaacccct
     1081 ttctttttgc acggggagac tggccatcaa tttacgaaag aagaaagaaa attgagttaa
     1141 agatcagtta tgacaccaat ggaagaacgg tgcagacgaa ggtaatggat gatgaatgct
     1201 gaagataaac tttttaaaaa tgtagacagg ctaatgctgc atgattcact aaaaaagaat
     1261 gaggttctga ctgtttggga gcgtactttt ttaagcagtg tttacagcat atatcgtaga
     1321 actagcggta ataaatactc aactaagggt ttgtcaccaa agcagaaaaa cgcagctttt
     1381 tctattttaa aaaaacataa ttaccatctg aatgattaat tttttcgtgg tgaatgccgc
     1441 aaatgacgtc actttgcggc gttagcccta tcctgcatcg catcaaaact aacgctccat
     1501 accacccatg ccacgcgatc gcgtctgtcg ctgtttttca cgttcaatac gctgctgttt
     1561 ttccttttcc tggttttgct gcttaaaccg ctgagccatc atcaggattt cggtcatctg
     1621 ctctctggaa agccccttaa aaggctctgt gacgctctgt aggcgtttct gctgcgcatc
     1681 catagtcttc tgtagctcac gcgctctttt tgcgttctgg gcgctctgag aggccatagc
     1741 gatggttcct gcaaagccat cgttcactgc gtggcttaga cgtttggcta tggctgcctg
     1801 atcttccacg tctttggtga aaatgccctt ccgcaataca cgcggctcca gcgcctccgg
     1861 cgagatcgat acctggctac gggtgccacg gtttatcgat tcgtagtagt gctgaactgt
     1921 ctgatgcgtg gcgcggcttc cctcgatgcc gcgctcaaga cccagttttt ttactgattc
     1981 agcgtaggtg ctctgatctt cacgcatctt tgaccgcccg ccaataaact ctttcgcgga
     2041 cagccgtcca tcctgcgtca atggcaccac gaacgcagac aggtgcgggg tggcctcgtc
     2101 ccggtgaacc accgccgcca caacacgatc cttcccgtat ttcttctcca gccattgctc
     2161 agagcgggcg aaaaactccg cctgctgccg tggtgtggcc tctttccacc actcagggct
     2221 tgctgtcata acgtattcaa cggccagtac cgcatcttta cggcgttttt ccggcagcag
     2281 ctcccgcaca cgccccattg cctgatccgt tgatttggac acagagcagt agttttctgg
     2341 tgtccgttca gcgttagcgt tcggcgtctc acgctctcgg tagcagtgct gtaacgcgct
     2401 ggccacgctt cccattcccg tcagcttttt gcagcgcatt at
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