LOCUS       CP077071                3607 bp    DNA     circular BCT 27-JUN-2021
DEFINITION  Escherichia coli strain Q4552 plasmid pECQ4552_IHU08, complete
            sequence.
ACCESSION   CP077071
VERSION     CP077071.1
DBLINK      BioProject: PRJNA738695
            BioSample: SAMN19756648
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3607)
  AUTHORS   Hamame,A., Davoust,B., Hamel,M., Rolain,J.-M. and Diene,S.M.
  TITLE     Genomic characterization of a mcr-1 and mcr-3-producing Escherichia
            coli strain isolated from pig in France
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3607)
  AUTHORS   Hamame,A., Davoust,B., Hamel,M., Rolain,J.-M. and Diene,S.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-JUN-2021) Aix-Marseille University, MEPHI, IRD, APHM,
            IHU-Mediterranee Infection, Marseille, France, 19-21 Bd Jean Moulin,
            Marseille 13005, France
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2021
            Assembly Method                   :: Canu v. 1.6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 34.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/21/2021 12:56:26
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,833
            CDSs (total)                      :: 4,716
            Genes (coding)                    :: 3,694
            CDSs (with protein)               :: 3,694
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 1,022
            CDSs (without protein)            :: 1,022
            Pseudo Genes (ambiguous residues) :: 0 of 1,022
            Pseudo Genes (frameshifted)       :: 875 of 1,022
            Pseudo Genes (incomplete)         :: 170 of 1,022
            Pseudo Genes (internal stop)      :: 38 of 1,022
            Pseudo Genes (multiple problems)  :: 59 of 1,022
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            Bacteria and source DNA available from MEPHI, IHU-Mediterranee
            infection, 19-21 Bd Jean moulin 13005, Marseille.
            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..3607
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Q4552"
                     /isolation_source="pig"
                     /db_xref="taxon:562"
                     /plasmid="pECQ4552_IHU08"
                     /geo_loc_name="France: Avignon"
                     /lat_lon="43.85274931 N 4.96206883 E"
                     /collection_date="2020-01"
                     /collected_by="Afaf Hamame"
     gene            259..453
                     /locus_tag="KRX18_24135"
     CDS             259..453
                     /locus_tag="KRX18_24135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_001165309.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YlcI/YnfO family protein"
                     /protein_id="QWZ14475.1"
                     /translation="MSTKNRTRRTTTRNIRFPNQMIEQINIALEQKGSGNFSAWVIEAC
                     RRRLTSEKRAYTSIKSDEE"
                     /name="YlcI/YnfO family protein"
     gene            complement(618..824)
                     /locus_tag="KRX18_24140"
     CDS             complement(618..824)
                     /locus_tag="KRX18_24140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309654.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QWZ14476.1"
                     /translation="MNKEQSADDPSVDLIRVKNMLNSTISMSYPDVVIACIEHKVSLEA
                     FRAIEAALVKHDNNMKDYSLVVD"
                     /name="hypothetical protein"
     gene            1110..1520
                     /locus_tag="KRX18_24145"
     CDS             1110..1520
                     /locus_tag="KRX18_24145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_415090.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF1398 domain-containing protein"
                     /protein_id="QWZ14477.1"
                     /translation="MAQVAIFKEIFDQVRKDLDCELFYSELKRHNVSHYIYYLATDNIH
                     IVLENDNTVLIKGLKKVVNVKFSRNTHLIETSYDRLKSREITFQQYRENLAKAGVFRWV
                     TNIHEHKRYYYTFDNSLLFTESIQNTTQIFPR"
                     /name="DUF1398 domain-containing protein"
     gene            1810..2103
                     /gene="bor"
                     /locus_tag="KRX18_24150"
     CDS             1810..2103
                     /gene="bor"
                     /locus_tag="KRX18_24150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309652.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="serum resistance lipoprotein Bor"
                     /protein_id="QWZ14473.1"
                     /translation="MKKMLLATALALLITGCAQQTFTVQNKPAAVAPKETITHHFFVSG
                     IGQKKTVDAAKICGGAENVVKTETQQTFVNGLLGFITLGIYTPLEARVYCSQ"
                     /name="bor"
     gene            complement(2135..2595)
                     /gene="rzpD"
                     /locus_tag="KRX18_24155"
                     /pseudo=""
     CDS             complement(2135..2595)
                     /gene="rzpD"
                     /locus_tag="KRX18_24155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309650.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="prophage endopeptidase RzpD"
                     /name="rzpD"
     gene            complement(2592..3068)
                     /locus_tag="KRX18_24160"
     CDS             complement(2592..3068)
                     /locus_tag="KRX18_24160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="glycoside hydrolase family protein"
                     /protein_id="QWZ14474.1"
                     /translation="MVEINNQRKAFLDMLAWSEGTDNGRQKTRNHGYDVIVGGELFTDY
                     SDHPRKLVTLNPKLKSTGAGRYQLLSRWWDAYRKQLGLKDFSPKSQDAVALQQIKERGA
                     LPMIDRGDIRQAIDRCSNIWASLPGAGYGQFEHKADSLIAKFKEAGGTVREIDV"
                     /name="glycoside hydrolase family protein"
     gene            complement(3052..3375)
                     /locus_tag="KRX18_24165"
                     /pseudo=""
     CDS             complement(3052..3375)
                     /locus_tag="KRX18_24165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015966862.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="phage holin, lambda family"
                     /name="phage holin, lambda family"
ORIGIN
        1 attgtacttc gttcagttac gtattgctgc ttacggttca ctactcacga cgatgttttt
       61 ttggtacctt ttttcaccgg aaaggacccg taaagtgata atgattatca tctacatatc
      121 acaacgtgcg tggaggccat caaaccacgt caaataatca attatgacgc aggtatcgta
      181 ttaattgatc tgcatcaact taacgtaaaa acaacttcag acaatacaaa tcagcgacac
      241 tgaatacggg gcaacctcat gtcaacgaag aacagaaccc gcagaacaac aacccgcaac
      301 atccgctttc ctaaccaaat gattgaacaa attaacatcg ctcttgagca aaaagggtcc
      361 gggaatttct cagcctgggt cattgaagcc tgccgtcgga gactaacgtc agaaaagaga
      421 gcatatacat caattaaaag tgatgaagaa tgaacatccc gcgttcttcc ctccgaacag
      481 gacgatattg taaattcact taattacgag ggcattgcag taattgagtt gcagttttac
      541 cactttcctg acagtgacag actgcgtgtt ggctctgtca cagactaaat agtttgaatg
      601 attagcagtt atggtgatca gtcaaccacc agggaataat ccttcatatt attatcgtgc
      661 ttcaccaacg ctgcctcaat tgctctgaat gcttccagag acaccttatg ttctatacat
      721 gcaattacaa catcagggta actcatagaa atggtgctat taagcatatt ttttacacga
      781 atcagatcca cggagggatc atcagcagat tgttctttat tcattttgtc gctccatgcg
      841 cttgctcttc atctagcggt taaaatatta cttcaaatct ttctgtatga agatttgagc
      901 acgttggcct tacatacatc tgtcggttgt atttccctcc agaatgccag caggaccgca
      961 ctttgttacg caaccaatac tattaagtga aaacattcct aatatttgac ataaatcatc
     1021 aacaaaacac aaggaggtca gaccagattg aaacgataaa aacgataatg caaactacgc
     1081 gccctcgtat cacatggaag gttttaccaa tggctcaggt tgccattttt aaagaaatat
     1141 tcgatcaagt gcgaaaagat ttagactgtg aattgtttta ttctgaacta aaacgtcaca
     1201 acgtctcaca ttatatttac tatctagcca cagataatat tcacatcgtg ttagaaaacg
     1261 ataacaccgt gttaataaaa ggacttaaaa aggttgtaaa tgttaaattc tcaagaaaca
     1321 cgcatcttat agaaacgtcc tatgataggt tgaaatcaag agaaatcaca tttcagcaat
     1381 acagggaaaa tcttgctaaa gcaggagttt tccgatgggt tacaaatatc catgaacata
     1441 aaagatatta ctataccttt gataattcat tactatttac tgagagcatt cagaacacta
     1501 cacaaatctt tccacgctaa atcataacgt ccggtttctt ccgtgtcagc accggggcgt
     1561 tggcataatg caatacgtgt acgcgctaaa ccctgtgtgc atcgttttaa ttattcccgg
     1621 acactcccgc agagaagttc cccgtcaggg ctgtggacat agttaatccg ggaatacaat
     1681 gacgattcat cgcacctgac atacattaat aaatattaac aatatgaaat ttcaactcat
     1741 tgtttagggt ttgtttaatt ttctacacat acgattctgc gaacttcaaa aagcatcggg
     1801 aataacacca tgaaaaaaat gctactcgct actgcgctgg ccctgcttat tacaggatgt
     1861 gctcaacaga cgtttactgt tcaaaacaaa ccggcagcag tagcaccaaa ggaaaccatc
     1921 acccatcatt tcttcgtttc tggaattggg cagaagaaaa ctgtcgatgc agccaaaatt
     1981 tgtggcggcg cagaaaatgt tgttaaaaca gaaacccagc aaacattcgt aaatggattg
     2041 ctcggtttta ttactttagg catttatact ccgctggaag cgcgtgtgta ttgctcacaa
     2101 taattgcatg agttgcccat cgatatgggc aactctatct gcactgctca ttaatatact
     2161 tctgggttcc ttccagttgt ttttgcatag tgatcagcct ctctctgagg gtgaaataat
     2221 cccgttcagc ggtgtctgcc agtcggggga ggctgcatta tccacgccgg aggcggtggt
     2281 ggcttcacgc actgactgac agactgcttt gatgtgcaac cgacgacgac cagcggcaac
     2341 atcatcacgc agagcatcat tttcagcttt agcatcagct aactccttcg tgtattttgc
     2401 atcgagcgca gcaacatcac gctgacgcat ctgcatgtca gtaattgccg cgttcgccag
     2461 cttcagttct ctggcatttt tgtcgcgctg ggctttgtag gtaatggcgt tatcacggta
     2521 atgattaaca gcccatgaca ggcagacgat gatgcagata accagagcgg agataatcgc
     2581 ggtgactctg ctcatacatc aatctctctg accgttccgc ccgcttcttt gaattttgca
     2641 atcaggctgt cagccttatg ctcgaactga ccataaccag cgcccggcag tgaagcccag
     2701 atattgctgc aacggtcgat tgcctgacgg atatcaccac gatcaatcat aggtaaagcg
     2761 ccacgctcct taatctgctg caatgccaca gcgtcctgac ttttcggaga gaagtctttc
     2821 aggccaagct gcttgcggta ggcatcccac caacgggaaa gaagctggta gcgtccggcg
     2881 cctgttgatt tgagttttgg gtttagcgtg acaagtttgc gagggtgatc ggagtaatca
     2941 gtaaatagct ctccgcctac aatgacgtca taaccatgat ttctggtttt ctgacgtccg
     3001 ttatcagttc cctccgacca cgccagcata tcgaggaacg ccttacgttg attattgatt
     3061 tctaccatct tctactccgg cttttttagc agcgaagcgt ttgataagcg aaccaatcga
     3121 gtcagtaccg atgtagccga taaacacgct cgttatataa gcgagattgc tacttagtcc
     3181 ggcgaagtcg agaaggtcac gaatgaacta ggcgataatg gcgcacatcg ttgcgtcgat
     3241 tactgttttt gtaaacgcac cgccattata tctgccgcga aggtacgcca ttgcaaacgc
     3301 aaggattgcc ccgatgcctt gttcctttgc cgcgagaatg gcggccaaca ggtcatgttt
     3361 ttctggcatc ttcatgtctt acccccaata aggggatttg ctctatttaa ttaggaataa
     3421 ggtcgattac tgatagaaca aatccaggct actgtgttta gtaatcagat ttgttcgtga
     3481 ccgatatgca cgggcaaaac ggcaggaggt tgttagcgca aaaaaaattc caaaaaaaaa
     3541 attccaaaaa aaaagcgact aacaaacaca atctgatggc agcaatacgt aactgaacga
     3601 agtacaa
//
