LOCUS       NZ_CP142052             1551 bp    DNA     circular CON 17-JAN-2024
DEFINITION  Escherichia coli strain L9 plasmid pL9-8, complete sequence.
ACCESSION   NZ_CP142052
VERSION     NZ_CP142052.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39307979
            Assembly: GCF_035666355.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1551)
  AUTHORS   Zhang,L., Tao,M., Li,M. and Liu,J.
  TITLE     Effect of colistin on Escherichia coli biofilm
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1551)
  AUTHORS   Zhang,L., Tao,M., Li,M. and Liu,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JAN-2024) College of Veterinary Medicine, Henan
            Agricultural University, Longzihu District, Zhengzhou, Henan 450046,
            China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 13-JUN-2023
            Assembly Method :: A5-miseeq v. V20152522; CANU v. v1.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 432.0x
            Sequencing Technology             :: Illumina TruSeq; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/17/2024 07:58:43
            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)                     :: 5,001
            CDSs (total)                      :: 4,880
            Genes (coding)                    :: 4,623
            CDSs (with protein)               :: 4,623
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 70 of 257
            Pseudo Genes (incomplete)         :: 192 of 257
            Pseudo Genes (internal stop)      :: 51 of 257
            Pseudo Genes (multiple problems)  :: 51 of 257
            Pseudo Genes (short protein)      :: 4 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP142052.1.
            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..1551
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="L9"
                     /isolation_source="chicken"
                     /db_xref="taxon:562"
                     /plasmid="pL9-8"
                     /geo_loc_name="China:Henan"
                     /collection_date="2023-06-13"
     gene            join(1457..1551,1..127)
                     /locus_tag="VPJ62_RS25000"
                     /old_locus_tag="VPJ62_25000"
     CDS             join(1457..1551,1..127)
                     /locus_tag="VPJ62_RS25000"
                     /old_locus_tag="VPJ62_25000"
                     /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_152921959.1"
                     /translation="MCKCNTVTRDDIPFAIWSGLRPDTPHQCVRAQCGFRFSSASSPTR
                     SLRSVAGAAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     gene            complement(572..1048)
                     /locus_tag="VPJ62_RS25005"
                     /old_locus_tag="VPJ62_25005"
     CDS             complement(572..1048)
                     /locus_tag="VPJ62_RS25005"
                     /old_locus_tag="VPJ62_25005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          1128..1236
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.364"
                     /coverage="100.0"
                     /evalue="9.16e-44"
     Typing          complement(1439..1530)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.398"
                     /coverage="100.0"
                     /evalue="3.4000000000000004e-27"
     Typing          81..341
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 atgtggtttc cggttctctt ccgcttcctc gcccactcgc tcactacgtt cggtcgctgg
       61 ggctgcggcg agcgggatca cctctcgcat gttgtcggtg atcccggtgt tgttcttttg
      121 gggatgagtc gccagatagc ccctcaaacg cgctcaaaag ctctcagacg cacgaaacgg
      181 gttttagatg cccgccaggg catggaaggc gcgaaaaacg cttacagagg ctctcaggag
      241 gtcaagcgcg ccgatacccc taaccagggg ctttcaggtc gccaggaacc gcgccagccc
      301 cctgcaaagc ccatttgcac ggaacaggca gccatgcggt tggtaggtgg tcgtagaccg
      361 tcggtgttgc agcgatgggg gtctggggtt ctccccagac ggtttccggt agcgctcaag
      421 gcgctgccgg aaccgtggcg gctcggtttt ttctggagaa cggggagcaa aaacacgcaa
      481 aggattttga ggcggcaaaa gagcaatgca ggatagacaa tcatggtcag aacgttaaca
      541 cgtagcccct gattgtccgc ctgccgctag ctcaatttga aaacatggcc atgattcggc
      601 gctgaatatc accgtctttg ttgaccagtg ttttagtgac aaacgctgca tggtttttcg
      661 tagtgttgta tcccttccag acttcatgtg gatcgagggc atacgcacaa accttaccag
      721 caacggggat tctaactaat gcattttttg attctaagta attgagccac cgaataattg
      781 tgcttctgct aactccaagt ttttcagcta ggaattgctg atccgcaacg acagcgccac
      841 acgtaggatc gatatgctcc gctaaaaatg agtacagctt cagtgctgat atgccttggc
      901 tatccttcag cagctctcga acacgttccc aaccttttgg ggatacctgt gtaaaccttg
      961 aatttttctt tgcttcttcg agatcctcgg tgtttttctt tgcctcatct gaaagttgtt
     1021 tcagtcgttt ttctgaatca ataaacatga ttttttccct ctgaaaatcc catgcactaa
     1081 cgttggttca aatctaagcc atcatgacac atctgtgcaa caccttgttg cgtgttgtcg
     1141 catcctggat gcgacaacgt tgtgtcatcc tggatgcgac aggtaaataa aaaacacact
     1201 aaaaaaacaa gcacttacaa atcggcgtaa aagatctatt ctaggcaagg gtgttgcgtg
     1261 caacgcaacg ccctttgggg gtgtcggggc gaagccctga cccagtcacg tagcgatagc
     1321 ggagtgtata ctggcttact cctctgcaag cctcgtcagc cgtgattttg cacgatttcg
     1381 cgctctccac gttcaacagc tcgatcatgt ttttgccttc cgttcaccgc taaaacgccc
     1441 caaaaatcgg gacaggatgt gcaaatgtaa taccgtcacc cgcgacgata ttccgtttgc
     1501 catctggtca gggcttcgcc ccgacacccc gcatcagtgc gtacgtgctc a
//
