LOCUS       NZ_CP043299             2959 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain WCHEC040047 plasmid p3_040047, complete
            sequence.
ACCESSION   NZ_CP043299
VERSION     NZ_CP043299.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08932753
            Assembly: GCF_022559045.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2959)
  AUTHORS   Tang,G., Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain WCHEC040047
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2959)
  AUTHORS   Tang,G., Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-AUG-2019) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022559045.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:28:36
            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)                     :: 5,121
            CDSs (total)                      :: 5,001
            Genes (coding)                    :: 4,817
            CDSs (with protein)               :: 4,817
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 184
            CDSs (without protein)            :: 184
            Pseudo Genes (ambiguous residues) :: 0 of 184
            Pseudo Genes (frameshifted)       :: 66 of 184
            Pseudo Genes (incomplete)         :: 127 of 184
            Pseudo Genes (internal stop)      :: 32 of 184
            Pseudo Genes (multiple problems)  :: 36 of 184
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP043299.1.
            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="WCHEC040047"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p3_040047"
                     /geo_loc_name="China: Chengdu, Sichuan"
                     /collection_date="2017"
     gene            complement(1424..2002)
                     /locus_tag="FYK54_RS25525"
                     /old_locus_tag="FYK54_25890"
     CDS             complement(1424..2002)
                     /locus_tag="FYK54_RS25525"
                     /old_locus_tag="FYK54_25890"
                     /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"
     gene            2399..2854
                     /locus_tag="FYK54_RS25530"
                     /old_locus_tag="FYK54_25895"
     CDS             2399..2854
                     /locus_tag="FYK54_RS25530"
                     /old_locus_tag="FYK54_25895"
                     /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"
     Typing          complement(118..611)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.237"
                     /coverage="96.0"
                     /evalue="2.76e-175"
ORIGIN
        1 ttagttaatc ctggcagatt ctctaaccgt ggtaacagtc ttgtgcgaga catgtcacca
       61 aatctgtcct ttcagtgtag ccgcagtcag gccaccactt caagaactct cgatacatct
      121 ctcgcacatc ctgtttacca gtggctgctg ccagtggcgc tttgtcgtgt ctttccgggt
      181 tggactcaag ttgatagtta ccggaaaagg cgcagcagtc ggactgaacg gggggttcgt
      241 gcatacagtc cagcttggag cgaactgcct tcccggaatc gagtgtcagg cgtggaatga
      301 gataaacgcg gccataacag cggaatgaca ccggtaaacc gaaaggcagg aacaggagag
      361 cgcacgaggg agccaccagg gggaaacgcc tggtatcttt aagtcctgtc gggtttcgcc
      421 accactgatt tgagcgtcag attctgtgat gcttgtcagg ggggcggagc ctatggaaaa
      481 tcggcaacgc cgcggcgttt ttttccccct catcgtccct catggcttca tcttttgatg
      541 tgcctgttcc ctccgctcgc cgcagccgaa cgaccgagcg cagcgagtca gtgagcgagg
      601 aagcggaata tcttcgtact tatctttggc accgtacacg ccatagctgc atttttaatg
      661 cgatgcagga tagggctaac gccgtaaagt gacgtcacct gatacttctg gattacaaca
      721 gttaaagcag atgacaggat atgttttgtg ttcaccgcca gtttgtcagc gctacaaaac
      781 agcgggacaa gatgtgtttt tggagtaccg cccatactcc aaaacgctat gaccatgctc
      841 tgcccgatac ccttagcaat cagtgtttgc aatctgtccc gaacctgttt aggaagtgtt
      901 tgcaatctgt cccgaatctg tttaggaagt gtttgcaatc tgtcccgaat ctgtttagga
      961 agtgtttgca acctgtcccg aatctgtttg ctcagtgttt atagcctgtt ttctcactga
     1021 tttactctgc atgtccaagg cacgttagcg atgtatacat cgccgcgccg caagggtgcc
     1081 ccttccgaat cccgttcatc actgcgtgct gattaatcca cgttaaatcc gaccccctta
     1141 gcaataaatc cagccatgcc tgacggcctg gccaacgcct cacggccgca cagtaaactg
     1201 cgcacccgtg aggcgttatt cgtgaggtta agtggtgctt ttggacgtcc tgccggattt
     1261 tagccgctaa aatcccggcc atgcatgtgt gtgcatagcc atgcagactc gcagaaatca
     1321 tcaggcgcgt tttttcacga tataggtata gggaagtgcc ggaaacagtc atcccgccgc
     1381 agaaatgcgc tgagggcgtc tgagggggtg cggccaacgg atgttatggt aaatccgcaa
     1441 ctttcttgcc tcgacaatct ttgcaccaac tttgcgttct catcttccca ttagtgtcag
     1501 ttctgaatcc aaactctttt gttatttctt ctcttgatat ggctattttc ccgcattttg
     1561 gacacgtatg tttttcatcg ggcgtattta aagatggtat ttttaggttg attagcttca
     1621 gcattaaagg ggtgaggtca tacaagttag tcattccttt ggagttttta ccggtggaac
     1681 gtatttttat cctcagaatg tccatttcta ctaacttgtt taaatttctc tgaattgttc
     1741 gtctgtcttg attcattctt tcgcatagaa gcgaaattga tgggtacact cttgcgtcag
     1801 aatgatgcat gaaagagatc aggttaatca aaagtacaag ctctgtgttt cctattccta
     1861 gcttagattg gttttttaat agttcattgg gaacggacgt ccagccagag tttaaaatgc
     1921 tgcgccccca tatggctaag attctttcgg ggatctctac tgataagtgt tctgtttttt
     1981 ttagttcgat ttctgatttc aacttcggcc accaatcata ataacaatac ctatatatat
     2041 aggtattgtt attatgatta attattcggg cggcatcaat gccgcccttg tatttgacca
     2101 aaaaggccta atgtctagca ccggggaaag acctctctta ccatcgaatt gagcaagatt
     2161 ttatcttccc agatttcttc aaacatagga ctgacatgtt ggcaaacgta cgatttgata
     2221 atcacagctg cgatacagaa cgtcgtcagc agtacaaatc tcgtgctgac gaagtgctgc
     2281 tctcgcgttc atacaagaat cagacgcatg aagcgttaaa atgcgattct ccgaagtctg
     2341 atgaatcgat ctttgatatg ctatctgctt actcagtaag gtaagtggaa agtgtttgat
     2401 gacaaccaaa ttcaataagt ttgagcttca ttcagctttc cgagacggga agctgaatga
     2461 aaagcatttc gtagatttac cctacctcaa agaagaacaa ctccgggcat tagcctcttt
     2521 cttgggtgcg ataactcgtg aagagcctct tccagggaaa aacaagcctt catggcttga
     2581 tgatgattcc attaaaattt ccggtactga tgcttacgaa gacgggaact actggcatta
     2641 tcattgcggt ccatatccag aatcggtcaa acttagatcg atgactttta acttgggtat
     2701 gaacgttgct ggactaacct ccgcagaagt gatccactat caaaaactca acgatggcac
     2761 ggtgtttgtc gtaggcttct cccctacaca tgagcccttc cctaagtctg atgcgccgca
     2821 ttacaaccct ctcttcaccg aatcagatga ttaaatatct gaatagtggc tggtaaggat
     2881 atgttgagat ttttttctct cagctgtagt ctcttttcct gaaacgaaaa aaccaccctg
     2941 gcaggtggtt tttcgaagg
//
