LOCUS       NZ_CP026574             2959 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain WCHEC005237 plasmid p3_005237, complete
            sequence.
ACCESSION   NZ_CP026574
VERSION     NZ_CP026574.2
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06209723
            Assembly: GCF_002945135.3
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2959)
  AUTHORS   Feng,Y., McNally,A. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain WCHEC005237
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2959)
  AUTHORS   Feng,Y., McNally,A. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-MAR-2018) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
  REMARK    Sequence update by submitter
REFERENCE   3  (bases 1 to 2959)
  AUTHORS   Feng,Y., McNally,A. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-FEB-2018) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Illumina HiSeq; MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002945135.3-RS_2024_06_20
            Annotation Date                   :: 06/20/2024 03:28:59
            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)                     :: 5,106
            CDSs (total)                      :: 4,987
            Genes (coding)                    :: 4,712
            CDSs (with protein)               :: 4,712
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 275
            CDSs (without protein)            :: 275
            Pseudo Genes (ambiguous residues) :: 0 of 275
            Pseudo Genes (frameshifted)       :: 94 of 275
            Pseudo Genes (incomplete)         :: 184 of 275
            Pseudo Genes (internal stop)      :: 58 of 275
            Pseudo Genes (multiple problems)  :: 55 of 275
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP026574.2.
            On Jul 18, 2018 this sequence version replaced NZ_CP026574.1.
            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..2959
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WCHEC005237"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p3_005237"
                     /geo_loc_name="China: Sichuan, Chengdu"
                     /collection_date="2014-10"
                     /note="also known as WCHEC1237 or 1237"
     gene            complement(join(2882..2959,1..378))
                     /locus_tag="C4E05_RS00080"
                     /old_locus_tag="C4E05_00100"
     CDS             complement(join(2882..2959,1..378))
                     /locus_tag="C4E05_RS00080"
                     /old_locus_tag="C4E05_00100"
                     /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_061350436.1"
                     /translation="MTTKFNKFELHSAFRDGKLNEKHFVDLPYLKEEQLRALASFLGAI
                     TREEPLPGKNKPSWLDDDSIKISGTDAYEDGNYWHYHCGPYPESVKLRSMTFNLGMNVA
                     GLTSAEVIHYQKLNDGTVFVVGFSPTHEPFPKSDAPHYNPLFTESDD"
                     /name="hypothetical protein"
     gene            775..1353
                     /locus_tag="C4E05_RS00085"
                     /old_locus_tag="C4E05_00105"
     CDS             775..1353
                     /locus_tag="C4E05_RS00085"
                     /old_locus_tag="C4E05_00105"
                     /inference="COORDINATES: protein motif:HMM:NF025107.4"
                     /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_123906182.1"
                     /translation="MKSEIELKKTEHLSVEIPERILAIWGRSILNSGWTSVPNELLKNQ
                     SKLGIGNTELVLLINLISFMHHSDARVYPSISLLCERMNQDRRTIQRNLNKLVEMDILR
                     IKIRSTGKNSKGMTNLYDLTPLMLKLINLKIPSLNTPDEKHTCPKCGKIAISREEITKE
                     FGFRTDTNGKMRTQSWCKDCRGKKVADLP"
                     /name="helix-turn-helix domain-containing protein"
     Typing          2167..2660
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.237"
                     /coverage="96.0"
                     /evalue="2.76e-175"
ORIGIN
        1 gcctacgaca aacaccgtgc catcgttgag tttttgatag tggatcactt ctgcggaggt
       61 tagtccagca acgttcatac ccaagttaaa agtcatcgat ctaagtttga ccgattctgg
      121 atatggaccg caatgataat gccagtagtt cccgtcttcg taagcatcag taccggaaat
      181 tttaatggaa tcatcatcaa gccatgaagg cttgtttttc cctggaagag gctcttcacg
      241 agttatcgca cccaagaaag aggctaatgc ccggagttgt tcttctttga ggtagggtaa
      301 atctacgaaa tgcttttcat tcagcttccc gtctcggaaa gctgaatgaa gctcaaactt
      361 attgaatttg gttgtcatca aacactttcc acttacctta ctgagtaagc agatagcata
      421 tcaaagatcg attcatcaga cttcggagaa tcgcatttta acgcttcatg cgtctgattc
      481 ttgtatgaac gcgagagcag cacttcgtca gcacgagatt tgtactgctg acgacgttct
      541 gtatcgcagc tgtgattatc aaatcgtacg tttgccaaca tgtcagtcct atgtttgaag
      601 aaatctggga agataaaatc ttgctcaatt cgatggtaag agaggtcttt ccccggtgct
      661 agacattagg cctttttggt caaatacaag ggcggcattg atgccgcccg aataattaat
      721 cataataaca atacctatat atataggtat tgttattatg attggtggcc gaagttgaaa
      781 tcagaaatcg aactaaaaaa aacagaacac ttatcagtag agatccccga aagaatctta
      841 gccatatggg ggcgcagcat tttaaactct ggctggacgt ccgttcccaa tgaactatta
      901 aaaaaccaat ctaagctagg aataggaaac acagagcttg tacttttgat taacctgatc
      961 tctttcatgc atcattctga cgcaagagtg tacccatcaa tttcgcttct atgcgaaaga
     1021 atgaatcaag acagacgaac aattcagaga aatttaaaca agttagtaga aatggacatt
     1081 ctgaggataa aaatacgttc caccggtaaa aactccaaag gaatgactaa cttgtatgac
     1141 ctcacccctt taatgctgaa gctaatcaac ctaaaaatac catctttaaa tacgcccgat
     1201 gaaaaacata cgtgtccaaa atgcgggaaa atagccatat caagagaaga aataacaaaa
     1261 gagtttggat tcagaactga cactaatggg aagatgagaa cgcaaagttg gtgcaaagat
     1321 tgtcgaggca agaaagttgc ggatttacca taacatccgt tggccgcacc ccctcagacg
     1381 ccctcagcgc atttctgcgg cgggatgact gtttccggca cttccctata cctatatcgt
     1441 gaaaaaacgc gcctgatgat ttctgcgagt ctgcatggct atgcacacac atgcatggcc
     1501 gggattttag cggctaaaat ccggcaggac gtccaaaagc accacttaac ctcacgaata
     1561 acgcctcacg ggtgcgcagt ttactgtgcg gccgtgaggc gttggccagg ccgtcaggca
     1621 tggctggatt tattgctaag ggggtcggat ttaacgtgga ttaatcagca cgcagtgatg
     1681 aacgggattc ggaaggggca cccttgcggc gcggcgatgt atacatcgct aacgtgcctt
     1741 ggacatgcag agtaaatcag tgagaaaaca ggctataaac actgagcaaa cagattcggg
     1801 acaggttgca aacacttcct aaacagattc gggacagatt gcaaacactt cctaaacaga
     1861 ttcgggacag attgcaaaca cttcctaaac aggttcggga cagattgcaa acactgattg
     1921 ctaagggtat cgggcagagc atggtcatag cgttttggag tatgggcggt actccaaaaa
     1981 cacatcttgt cccgctgttt tgtagcgctg acaaactggc ggtgaacaca aaacatatcc
     2041 tgtcatctgc tttaactgtt gtaatccaga agtatcaggt gacgtcactt tacggcgtta
     2101 gccctatcct gcatcgcatt aaaaatgcag ctatggcgtg tacggtgcca aagataagta
     2161 cgaagatatt ccgcttcctc gctcactgac tcgctgcgct cggtcgttcg gctgcggcga
     2221 gcggagggaa caggcacatc aaaagatgaa gccatgaggg acgatgaggg ggaaaaaaac
     2281 gccgcggcgt tgccgatttt ccataggctc cgcccccctg acaagcatca cagaatctga
     2341 cgctcaaatc agtggtggcg aaacccgaca ggacttaaag ataccaggcg tttccccctg
     2401 gtggctccct cgtgcgctct cctgttcctg cctttcggtt taccggtgtc attccgctgt
     2461 tatggccgcg tttatctcat tccacgcctg acactcgatt ccgggaaggc agttcgctcc
     2521 aagctggact gtatgcacga accccccgtt cagtccgact gctgcgcctt ttccggtaac
     2581 tatcaacttg agtccaaccc ggaaagacac gacaaagcgc cactggcagc agccactggt
     2641 aaacaggatg tgcgagagat gtatcgagag ttcttgaagt ggtggcctga ctgcggctac
     2701 actgaaagga cagatttggt gacatgtctc gcacaagact gttaccacgg ttagagaatc
     2761 tgccaggatt aactaacctt cgaaaaacca cctgccaggg tggttttttc gtttcaggaa
     2821 aagagactac agctgagaga aaaaaatctc aacatatcct taccagccac tattcagata
     2881 tttaatcatc tgattcggtg aagagagggt tgtaatgcgg cgcatcagac ttagggaagg
     2941 gctcatgtgt aggggagaa
//
