LOCUS       NZ_CP058665             2101 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain 005008 plasmid p1_005008, complete sequence.
ACCESSION   NZ_CP058665
VERSION     NZ_CP058665.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15447143
            Assembly: GCF_013426115.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2101)
  AUTHORS   Yang,P., Ma,K., Liu,L., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain 005008
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2101)
  AUTHORS   Yang,P., Ma,K., Liu,L., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JUL-2020) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 150.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 03:39:32
            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)                     :: 5,041
            CDSs (total)                      :: 4,919
            Genes (coding)                    :: 4,664
            CDSs (with protein)               :: 4,664
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 255
            CDSs (without protein)            :: 255
            Pseudo Genes (ambiguous residues) :: 0 of 255
            Pseudo Genes (frameshifted)       :: 71 of 255
            Pseudo Genes (incomplete)         :: 183 of 255
            Pseudo Genes (internal stop)      :: 53 of 255
            Pseudo Genes (multiple problems)  :: 50 of 255
            Pseudo Genes (short protein)      :: 4 of 255
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP058665.1.
            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..2101
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="005008"
                     /isolation_source="abdominal drainage"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p1_005008"
                     /geo_loc_name="China: Chengdu, Sichuan"
                     /collection_date="2012-11-30"
     gene            join(1208..2101,1..72)
                     /locus_tag="HZR83_RS24875"
                     /old_locus_tag="HZR83_24875"
     CDS             join(1208..2101,1..72)
                     /locus_tag="HZR83_RS24875"
                     /old_locus_tag="HZR83_24875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            76..342
                     /locus_tag="HZR83_RS24880"
                     /old_locus_tag="HZR83_24880"
     CDS             76..342
                     /locus_tag="HZR83_RS24880"
                     /old_locus_tag="HZR83_24880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          1602..1833
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 cggacggcgt ttgtctggga ttcaggtaaa cggcgttaca aacgcgcccc tgagaaggat
       61 aaatcggatt aacgtatgaa tattaatatt gaatacctga atggaaataa gactattggt
      121 ttattttttt taagaagtga agcggtgatt cctgacaggt ttaaaaacct tattttgctt
      181 attgatggat taagttttgg cacatttggt tttcatccgc acgaaggttt tgaggatgaa
      241 ttaattttat atattcagaa aacaaacgag agggtaaaaa ctctttttgt gaaaatagat
      301 ttaaacggta tcaagtttgg atttttaaga acgcattctt agttctggaa aagagccagc
      361 ggcaggctga ggtgataggt acgagattgc atgcaatctc tagtgctctg tctatcctgc
      421 attatcctca gcattatcct cagcattatc ctcagccttg ccaactcgac accaatgcag
      481 gatagacaat ccgatgtcaa atgttaacac tctgcgagtg gtacattttc cccggattat
      541 cgtcctgagc ctgccgctgg ctctctttct accgcctcgc tttgctcgtt gctcaacgcc
      601 tcacagacac ggattaaaat ccgcatccgt tcaccgtttt ttaaagtccg ttaaaagcat
      661 gatgccatct ccgagagtta atctcgtcaa atgctaaatc gtgggggtcc cctttggggt
      721 tccgatttag tgattgacga caccaccgat taaaaaactt atgcggggtg gatggtttca
      781 cgaagtgagg ccatccacct gtaagacagg gttttgtttt tattccctgt tttggtgatc
      841 gggtgtgtgg aaaaggttgg ggtaagccgt tcgggggtgc ttgttttggg gggttaaaat
      901 tgtggttatt ttttgcgcaa ttctcgcgcg tgatccttgt atttatactt aagggataaa
      961 tggcggatat gaaatagtgg tttagcccag taatgacgag gctttgagtg ggttttgaca
     1021 ggtcaaagaa aatggagcag aattgaggcg tttttaatcg gcgttgggga gtgcgtcaac
     1081 actccccaac atttcgaatg tgtcacctca gcggcaaact ctggtgacat gtactggctc
     1141 gcaatgcaca ggtacgtgat gaatatacca catcaaatca cagcctgccc agatcggagc
     1201 aggcttaatg tcagaagata aattcctttc ggactacagc ccccgtgatg cagtttggga
     1261 tacccagcgc acgcttaccg attctgtcgg gggtatctac cagactgctg ctgaattcga
     1321 gcgctatgca ctccgtatgg cctcctgtag cggtttgtta cgttttggtt ggtctaccat
     1381 catggaaacc ggagaaacgc gcctacggct tcgtagtgcg caattttgcc gtgtccgtca
     1441 ttgccctgtc tgccagtgga gaagaaccct catgtggcaa gcccgttttt atcaggctct
     1501 accgaaaatc gttgtggatt acccgtcttc ccgatggttg tttctgacgt taactgtcag
     1561 gaactgcgag ataggtgaac ttggaacagt ccttacagca atgaatgcgg cgtttaagcg
     1621 aatggaaaag cgaaaggagc tatcacctgt tcaggggtgg atcagggcta cggaggtgac
     1681 gcgaggtaag gatggcagcg cacatccgca ttttcactgt ctgctgatgg tgcaaccttc
     1741 ttggtttaaa gggaagaact acgttaagca cgaacgttgg gtagaactct ggcgcgattg
     1801 cttgcgggtg aactatgagc cgaatatcga tattcgggca gtaaaaacta agacaggtga
     1861 ggttgtggcc aacgttgccg agcaactgca aagcgcggtt gctgaaacgc tgaaatactc
     1921 cgttaaaccg gaagatatgg caaacgatcc tgagtggttt cttgagctga cgcggcagct
     1981 tcacaagcgc cgttttatct cgaccggtgg ggcgctaaaa aacgtcctcc agttggatcg
     2041 agaaaccaat gaggatcttg tcattgccga cgatgtaggg gatggcactg atgacgggaa
     2101 g
//
