LOCUS       NZ_CP026573             3684 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain WCHEC005237 plasmid p2_005237, complete
            sequence.
ACCESSION   NZ_CP026573
VERSION     NZ_CP026573.2
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 3684)
  AUTHORS   Feng,Y., McNally,A. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain WCHEC005237
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3684)
  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 3684)
  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
            CP026573.2.
            On Jul 18, 2018 this sequence version replaced NZ_CP026573.1.
            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..3684
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WCHEC005237"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2_005237"
                     /geo_loc_name="China: Sichuan, Chengdu"
                     /collection_date="2014-10"
                     /note="also known as WCHEC1237 or 1237"
     gene            complement(join(3374..3684,1..112))
                     /locus_tag="C4E05_RS00050"
                     /old_locus_tag="C4E05_00065"
     CDS             complement(join(3374..3684,1..112))
                     /locus_tag="C4E05_RS00050"
                     /old_locus_tag="C4E05_00065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_039023181.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVLKHGKTIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAGSTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPDSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(112..303)
                     /locus_tag="C4E05_RS00055"
                     /old_locus_tag="C4E05_00070"
     CDS             complement(112..303)
                     /locus_tag="C4E05_RS00055"
                     /old_locus_tag="C4E05_00070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_039023180.1"
                     /translation="MSKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            708..854
                     /locus_tag="C4E05_RS26110"
     CDS             708..854
                     /locus_tag="C4E05_RS26110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001717510.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_073545459.1"
                     /translation="MHEPPVQSDCCTLSGNYHLESNPVRHAQAPLAAATGKKVYKRLLI
                     QSS"
                     /name="replication initiation protein"
     gene            complement(1312..1593)
                     /locus_tag="C4E05_RS00065"
                     /old_locus_tag="C4E05_00080"
     CDS             complement(1312..1593)
                     /locus_tag="C4E05_RS00065"
                     /old_locus_tag="C4E05_00080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_032440460.1"
                     /translation="MIKNIKHKGLRSFAEEGSTAGIQPSMAKRLRMILTTLSTATCIQD
                     VVDVRALGCHPLKGERKGEYSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            1930..2223
                     /locus_tag="C4E05_RS00070"
                     /old_locus_tag="C4E05_00055"
     CDS             1930..2223
                     /locus_tag="C4E05_RS00070"
                     /old_locus_tag="C4E05_00055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609279.1"
                     /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="HigA family addiction module antitoxin"
                     /protein_id="WP_023317864.1"
                     /translation="MINLYDPVHPGEFIREMFMEPFEIPAAELADKLDVSQSTLSRLLN
                     GKTDLSYEMALRLSKVVGRSAESWVNMQTQFSLSKSRKSLAAELEHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            2287..2589
                     /locus_tag="C4E05_RS00075"
                     /old_locus_tag="C4E05_00060"
     CDS             2287..2589
                     /locus_tag="C4E05_RS00075"
                     /old_locus_tag="C4E05_00060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006326557.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3892 domain-containing protein"
                     /protein_id="WP_039023182.1"
                     /translation="MVDFYISAIKMDSAGQHIEFVKVHKINRDGSWNTAGSISSRKFIS
                     ELISMGKASFMTVVKNSSTGKWNLGAKVEAMDDGYITTDPNKTKLDNLGNLPKFV"
                     /name="DUF3892 domain-containing protein"
     Typing          445..817
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.467"
                     /coverage="91.0"
                     /evalue="1.28e-167"
ORIGIN
        1 cgtgctttaa aacagaggtg taacttaact tcccactgtt aatcatcttg taaattgtgg
       61 ggcgactaac cttaacaagc cgtgccgctt cactaataga cactctggcc atcagttacc
      121 atcctgtaat tcatccagtc tcgaggacag tgtacggaaa agatgctccg catcatcgtg
      181 gagtttctca caaaggtcgg cctctgcatc aagatcaagc tcgttaagct tctccagcag
      241 gagcagagac tgattctgga tgaatttagc catgttcagc gctgttttct gttgtttcga
      301 cataagaggc ctcagagcgt cagtgctcag tgtaggtatg ttctcttttc cgcttcctcg
      361 ctcactcagt cgctacgctc ctgccgttcg gctgcggcga gcggtcgcaa tacacacata
      421 acgacatagg acagacagca cggagaggga gaaggccgca caccggccgt ttttccatag
      481 gctccgcccc cctgacaagc atcacgaaat ctgacgctca aatcagtggt ggcgaacccc
      541 gacaggacta taaagatacc aggcgtttcc ccctgatggc tccctcgtgc gctctcctgt
      601 tcctgccttt cggtttaccg gtgtcattcc gctgttatgg ccgcgtttat ctcattccac
      661 gccagacact cagttccggg taggcagttc gctccaagct ggactgtatg cacgaacccc
      721 ccgttcagtc cgactgctgc accttatccg gtaactatca tcttgagtcc aacccggtaa
      781 gacacgcaca agcgccactg gcagcagcca ctggtaagaa ggtgtacaag agattactga
      841 tacagagttc ttgaagtctc agcccaacta cggctaaact gaaaggacag aatttggttt
      901 cagcggtctt gtacaccctg ttaccacggt tcagaagttc cccaacttac tgaaccctcg
      961 aaaaaaccgc ctccccaggc ggttttttcg tctcggcgag taagatacgc tttatcattc
     1021 aaagcagtca aggaagaacc aagacagctc actcaccagc aggctccttt ttattggtag
     1081 acacatgctt ctggacagta tcagcccctg cacaaagtac agcagctaac aagaaccatc
     1141 cccagccatc aataccacga aaagctagga ctccagcaat agttacgcta atcaacggga
     1201 acaataaaac cataaaggat ctcatacttt ctccagaggt tactttttta ataaagtccc
     1261 taatccatcc gtactttcac ttggatggat tagcaactta cttattgata actaatgata
     1321 atcttcaaga tcaacgtcta agacgtttgg ttcctcaacc ttgaaaacta cccgccagtt
     1381 cccattaact tcaacggaat actcgccttt acgctccccc tttagggggt ggcaccctaa
     1441 cgccctaacg tcaacaacgt cttgaatgca agttgctgtg cttagcgtag tcaaaatcat
     1501 gcgaagtctt ttcgccatac tgggctgaat accggcggtg ctaccttctt cagcaaagct
     1561 cctaagtcct ttatgtttta tgttttttat catctacaat ccccatattt ttttcgtcta
     1621 tacctgtatc tatattttaa aatcatttta attagttcca ttttgccccc ttgctttatt
     1681 aaaacaattg acgtaagttt gttcttgagg tcaatcacct catttgactt caacgaatcc
     1741 taagggtaaa atactgcgcc ttgaaaaggc cataaaagcc catacatacg cagtagcttt
     1801 gactccaacg agtatcctaa agctgactgc tttttttgtc aatatcatga acttgcacat
     1861 tgtgcaatgc gcatactgaa aggcagtaat ttttttgtat aatcaaatac aaaacaaaca
     1921 gaggaaggca tgataaatct ttacgatcct gttcatcctg gtgagtttat cagagaaatg
     1981 ttcatggaac cgttcgaaat acctgccgca gagttagccg ataaacttga tgtatcccag
     2041 tctaccttaa gtagactgtt aaatgggaaa acagacttaa gctatgaaat ggcacttaga
     2101 ttgtcgaagg tcgtaggccg ctctgcagag tcgtgggtaa acatgcagac ccaattcagc
     2161 ctgtcaaaaa gtcgcaaatc tttagcggca gagctggaac acttgcatcc aatgtttcca
     2221 tgaaaaaagc ccgcagaacg cgggcttttg ttacgtaaaa cacccagcag ccatcaggag
     2281 gcaaccatgg tagatttcta tatctcagca atcaaaatgg acagtgctgg tcagcacatc
     2341 gaattcgtaa aagttcataa aataaaccga gatggctcat ggaacactgc cggctcaatc
     2401 agctctcgca aattcatcag cgagctgatc agcatgggaa aagccagctt tatgacagtt
     2461 gtaaagaaca gctctactgg taagtggaac ctaggagcca aagtggaagc gatggacgat
     2521 ggctacataa ccacagatcc aaacaaaact aaactcgata acttgggaaa tctgccgaaa
     2581 tttgtctgat atgcaataac atccactaag ttccagcaga atcccctccc taatgattta
     2641 acataaagtc ataattgtac gcaccgccag aacggcctca gggcgtttct gacaggaaac
     2701 cggtaaaaca ggcaacaaac cacccgaaaa cccgtcagaa acgcgcaggc tctgttttta
     2761 cggcatgcat gagtatgcac gcaagtgcat agcgcgaaaa ttcacgccat tcagccaggg
     2821 taagtcctgt ttccggcgtt cttcccatcc gaaaacggtg aacggggacg caatttattg
     2881 cgtggccgtg aagcgttgcc ggcgcagccg gaaaaccggt tttcagcacg ttcaggaatc
     2941 gtgttcgtcg acggccggca atcacgtcat ggcaagtcgc cggacgactc accacacgat
     3001 tcaccggcga ctcttcacta gagtcgtacc cagagtcgcc gagtctaaaa aacaaccaaa
     3061 cggggagtcg ggtctagagt cgggtcgtta ttaactcatt gtttttatag ctctgagtcg
     3121 ttaccgactc tatgacgact cgccggggac tctatgacga gtcgtcatag agtcggatct
     3181 atgtaaataa aatttaaaaa ccgaaacttc aggaaagtaa gctactgata ttaaatacaa
     3241 atctgcaaaa ttttaatttt gcgtagtgtg tgggtatttt tagtcgtgag gagcgttcag
     3301 agatctggcg atttttggga aggttcagga actccccggg atggccggag aggaaaacgg
     3361 aagcatgacg gagtcaggat tttttccaga atttccacca cggggaatcg ggtggtgaag
     3421 aaggttcgtg cttgtgctcc agaagctgca tagcctgacg aagggaatca atatgctcat
     3481 ctcgagcctt aacagcccct ttaagaccat cgttttcagc ttctagtaaa gcaattctat
     3541 gttgtaaatc atgtaaacca acgctgttaa cacctgtaga tcctgcgtca ctttttacat
     3601 catattttac agtatcgatg acaccatcaa gagaaccaaa aactctaata agctctgaag
     3661 tatcaataac tttaatggtc ttcc
//
