LOCUS       NC_022661               1552 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli JJ1886 plasmid pJJ1886_1, complete sequence.
ACCESSION   NC_022661
VERSION     NC_022661.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02603887
            Assembly: GCF_000493755.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli JJ1886
  ORGANISM  Escherichia coli JJ1886
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1552)
  AUTHORS   Andersen,P.S., Stegger,M., Aziz,M., Contente-Cuomo,T., Gibbons,H.S.,
            Keim,P., Sokurenko,E.V., Johnson,J.R. and Price,L.B.
  TITLE     Complete Genome Sequence of the Epidemic and Highly Virulent
            CTX-M-15-Producing H30-Rx Subclone of Escherichia coli ST131
  JOURNAL   Genome Announc 1 (6), e00988-13 (2013)
   PUBMED   24309736
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1552)
  AUTHORS   Andersen,P.S., Price,L.B., Sokurenko,E.V., Stegger,M., Azziz,M.,
            Contente-Cuomo,T., Gibbons,H.S., Keim,P. and Johnson,J.R.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-OCT-2013) Microbiology and Infection Control, Statens
            Serum Institut, 5 Artillerivej, Copenhagen S DK-2300, Denmark
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: MIRA v. 3.9.9; ABySS v. 1.3.4; PBJelly v.
            12.9.14; CLC-bio v. 6.0.4; PAGIT v. 1; Celera v. 7.0
            Genome Coverage                   :: 50x
            Sequencing Technology             :: 454; Illumina; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000493755.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 02:00:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,283
            CDSs (total)                      :: 5,168
            Genes (coding)                    :: 4,961
            CDSs (with protein)               :: 4,961
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 207
            CDSs (without protein)            :: 207
            Pseudo Genes (ambiguous residues) :: 0 of 207
            Pseudo Genes (frameshifted)       :: 76 of 207
            Pseudo Genes (incomplete)         :: 144 of 207
            Pseudo Genes (internal stop)      :: 43 of 207
            Pseudo Genes (multiple problems)  :: 48 of 207
            Pseudo Genes (short protein)      :: 1 of 207
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP006785.1.
            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..1552
                     /organism="Escherichia coli JJ1886"
                     /mol_type="genomic DNA"
                     /strain="JJ1886"
                     /db_xref="taxon:1355100"
                     /plasmid="pJJ1886_1"
     gene            484..960
                     /locus_tag="P423_RS25860"
                     /old_locus_tag="P423_25130"
     CDS             484..960
                     /locus_tag="P423_RS25860"
                     /old_locus_tag="P423_25130"
                     /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          2..87
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.954"
                     /coverage="95.0"
                     /evalue="4.39e-26"
     Typing          complement(297..405)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          complement(1191..1451)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.511"
                     /coverage="100.0"
                     /evalue="3.95e-106"
ORIGIN
        1 ggggtgtcgg ggcgaagccc tgaccagatg gcaaacggaa tatcgtcgcg ggtgacggta
       61 ttacatttgc acatcctgtc ccgatttctg cgggggttaa cggtgaacgg acggcaaaaa
      121 acgtgcagga gctgttgaac gtgaaaacca cgaaatctgg caaaaatcac ggctggcgag
      181 gcttgcagag gagtaagcca gtatacactc cgctatcgct acgtgactgg gtcagggctt
      241 cgccccgaca cccccaaagg gcgttgcgtt gcgcgcaaca cccttgccta gaatagatct
      301 tttacgccga tttgtaagtt gttgtttttt tagtgtgttt tttgtttacc tgtcgcatcc
      361 agggtgacac aacgttgtcg catcctggat gcgacaacac gcaacaaggt gttgcacaga
      421 tgtgtcatga tggcttagat ttgaaccaac gttagtgcat gggattttta gagggaaaaa
      481 atcatgttta ttgattcaga aaaacgactg aaacaacttt cagatgaggc aaagaaaaac
      541 accgaggatc tcgaagaagc aaagaagaat tcaaggttta cacaggtatc cccaaaaggt
      601 tgggaacgcg ttcgagagct gctgaaggat agccaaggca tatcagcact gaagctgtac
      661 tcatttttag cggagcatat cgatcctacg tgtggcgctg tcgttgcgga tcagcaattc
      721 ctagctgaaa aacttggagt tagcagaagc acaattattc gttggctcaa ttacttagaa
      781 tcaaaaaatg cattagttag aatccccgtt gctggtaagg tttgtgcgta tgccctcgat
      841 ccacatgaag tctggaaggg atacaacact acgaaaaacc atgcagcatt tgtcactaaa
      901 acactggtca acaaagacgg tgatattcag cgccgaatca tggccatgtt ttcaaattga
      961 gccagcggca ggcggacaat caggggctac gtgttaacgt tctgaccatg attgtctatc
     1021 ctgcattgct cttttgccgc ctcaaaatcc cttgcgtgtt tttgctcccc gatctccaga
     1081 acgaccgagc cgccacggtt ccggcagcgc cttgagcgca accggaaacc gtctggggag
     1141 aaccccagac ccccatcgct gtaacaccga cggtctacga ccacctacca accgagtgac
     1201 tgcctgtacc gtgcaaatgg gctttgcagg gggctggcgc ggttcctggc gacctgaaag
     1261 cccctggcta ggggtatcgg cgcgcctgac ctcctgaaac gctctgtaag cgtttttcgc
     1321 gccttccatg ccctgacggg catttaaacc ccgcctcgtg cgtctgagag cttctgagcg
     1381 cgtttgaagg gctatctgac gactcatccc cgaaagaaca acagcggaat caccgacaac
     1441 atgcgagagg tggcaccgct cgccgcagcc ccagcgaccg aacgttagtg agcgagtggg
     1501 cgaggaagcg gaagagaacc ggaaaccaca ttgagcacgt acgcactgat ac
//
