LOCUS       NZ_CP036182             3684 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain WCHEC025970 plasmid p3_025970, complete
            sequence.
ACCESSION   NZ_CP036182
VERSION     NZ_CP036182.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10956393
            Assembly: GCF_004295365.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3684)
  AUTHORS   Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain WCHEC025970
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3684)
  AUTHORS   Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-FEB-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_004295365.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 06:04:20
            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)                     :: 5,247
            CDSs (total)                      :: 5,127
            Genes (coding)                    :: 4,888
            CDSs (with protein)               :: 4,888
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 239
            CDSs (without protein)            :: 239
            Pseudo Genes (ambiguous residues) :: 0 of 239
            Pseudo Genes (frameshifted)       :: 79 of 239
            Pseudo Genes (incomplete)         :: 160 of 239
            Pseudo Genes (internal stop)      :: 53 of 239
            Pseudo Genes (multiple problems)  :: 48 of 239
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP036182.1.
            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="WCHEC025970"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p3_025970"
                     /geo_loc_name="China: Chengdu, Sichuan"
                     /collection_date="2017-10"
     gene            complement(join(3572..3684,1..181))
                     /locus_tag="EYD11_RS26330"
                     /old_locus_tag="EYD11_26330"
     CDS             complement(join(3572..3684,1..181))
                     /locus_tag="EYD11_RS26330"
                     /old_locus_tag="EYD11_26330"
                     /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            518..799
                     /locus_tag="EYD11_RS26335"
                     /old_locus_tag="EYD11_26335"
     CDS             518..799
                     /locus_tag="EYD11_RS26335"
                     /old_locus_tag="EYD11_26335"
                     /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            complement(1257..1403)
                     /locus_tag="EYD11_RS27265"
     CDS             complement(1257..1403)
                     /locus_tag="EYD11_RS27265"
                     /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            1808..1999
                     /locus_tag="EYD11_RS26345"
                     /old_locus_tag="EYD11_26345"
     CDS             1808..1999
                     /locus_tag="EYD11_RS26345"
                     /old_locus_tag="EYD11_26345"
                     /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            1999..2421
                     /locus_tag="EYD11_RS26350"
                     /old_locus_tag="EYD11_26350"
     CDS             1999..2421
                     /locus_tag="EYD11_RS26350"
                     /old_locus_tag="EYD11_26350"
                     /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(3206..3508)
                     /locus_tag="EYD11_RS26355"
                     /old_locus_tag="EYD11_26355"
     CDS             complement(3206..3508)
                     /locus_tag="EYD11_RS26355"
                     /old_locus_tag="EYD11_26355"
                     /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          complement(1295..1667)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.467"
                     /coverage="91.0"
                     /evalue="1.28e-167"
ORIGIN
        1 ccttcgacaa tctaagtgcc atttcatagc ttaagtctgt tttcccattt aacagtctac
       61 ttaaggtaga ctgggataca tcaagtttat cggctaactc tgcggcaggt atttcgaacg
      121 gttccatgaa catttctctg ataaactcac caggatgaac aggatcgtaa agatttatca
      181 tgccttcctc tgtttgtttt gtatttgatt atacaaaaaa attactgcct ttcagtatgc
      241 gcattgcaca atgtgcaagt tcatgatatt gacaaaaaaa gcagtcagct ttaggatact
      301 cgttggagtc aaagctactg cgtatgtatg ggcttttatg gccttttcaa ggcgcagtat
      361 tttaccctta ggattcgttg aagtcaaatg aggtgattga cctcaagaac aaacttacgt
      421 caattgtttt aataaagcaa gggggcaaaa tggaactaat taaaatgatt ttaaaatata
      481 gatacaggta tagacgaaaa aaatatgggg attgtagatg ataaaaaaca taaaacataa
      541 aggacttagg agctttgctg aagaaggtag caccgccggt attcagccca gtatggcgaa
      601 aagacttcgc atgattttga ctacgctaag cacagcaact tgcattcaag acgttgttga
      661 cgttagggcg ttagggtgcc accccctaaa gggggagcgt aaaggcgagt attccgttga
      721 agttaatggg aactggcggg tagttttcaa ggttgaggaa ccaaacgtct tagacgttga
      781 tcttgaagat tatcattagt tatcaataag taagttgcta atccatccaa gtgaaagtac
      841 ggatggatta gggactttat taaaaaagta acctctggag aaagtatgag atcctttatg
      901 gttttattgt tcccgttgat tagcgtaact attgctggag tcctagcttt tcgtggtatt
      961 gatggctggg gatggttctt gttagctgct gtactttgtg caggggctga tactgtccag
     1021 aagcatgtgt ctaccaataa aaaggagcct gctggtgagt gagctgtctt ggttcttcct
     1081 tgactgcttt gaatgataaa gcgtatctta ctcgccgaga cgaaaaaacc gcctggggag
     1141 gcggtttttt cgagggttca gtaagttggg gaacttctga accgtggtaa cagggtgtac
     1201 aagaccgctg aaaccaaatt ctgtcctttc agtttagccg tagttgggct gagacttcaa
     1261 gaactctgta tcagtaatct cttgtacacc ttcttaccag tggctgctgc cagtggcgct
     1321 tgtgcgtgtc ttaccgggtt ggactcaaga tgatagttac cggataaggt gcagcagtcg
     1381 gactgaacgg ggggttcgtg catacagtcc agcttggagc gaactgccta cccggaactg
     1441 agtgtctggc gtggaatgag ataaacgcgg ccataacagc ggaatgacac cggtaaaccg
     1501 aaaggcagga acaggagagc gcacgaggga gccatcaggg ggaaacgcct ggtatcttta
     1561 tagtcctgtc ggggttcgcc accactgatt tgagcgtcag atttcgtgat gcttgtcagg
     1621 ggggcggagc ctatggaaaa acggccggtg tgcggccttc tccctctccg tgctgtctgt
     1681 cctatgtcgt tatgtgtgta ttgcgaccgc tcgccgcagc cgaacggcag gagcgtagcg
     1741 actgagtgag cgaggaagcg gaaaagagaa catacctaca ctgagcactg acgctctgag
     1801 gcctcttatg tcgaaacaac agaaaacagc gctgaacatg gctaaattca tccagaatca
     1861 gtctctgctc ctgctggaga agcttaacga gcttgatctt gatgcagagg ccgacctttg
     1921 tgagaaactc cacgatgatg cggagcatct tttccgtaca ctgtcctcga gactggatga
     1981 attacaggat ggtaactgat ggccagagtg tctattagtg aagcggcacg gcttgttaag
     2041 gttagtcgcc ccacaattta caagatgatt aacagtggga agttaagtta cacctctgtt
     2101 ttaaagcacg ggaagaccat taaagttatt gatacttcag agcttattag agtttttggt
     2161 tctcttgatg gtgtcatcga tactgtaaaa tatgatgtaa aaagtgacgc aggatctaca
     2221 ggtgttaaca gcgttggttt acatgattta caacatagaa ttgctttact agaagctgaa
     2281 aacgatggtc ttaaaggggc tgttaaggct cgagatgagc atattgattc ccttcgtcag
     2341 gctatgcagc ttctggagca caagcacgaa ccttcttcac cacccgattc cccgtggtgg
     2401 aaattctgga aaaaatcctg actccgtcat gcttccgttt tcctctccgg ccatcccggg
     2461 gagttcctga accttcccaa aaatcgccag atctctgaac gctcctcacg actaaaaata
     2521 cccacacact acgcaaaatt aaaattttgc agatttgtat ttaatatcag tagcttactt
     2581 tcctgaagtt tcggttttta aattttattt acatagatcc gactctatga cgactcgtca
     2641 tagagtcccc ggcgagtcgt catagagtcg gtaacgactc agagctataa aaacaatgag
     2701 ttaataacga cccgactcta gacccgactc cccgtttggt tgttttttag actcggcgac
     2761 tctgggtacg actctagtga agagtcgccg gtgaatcgtg tggtgagtcg tccggcgact
     2821 tgccatgacg tgattgccgg ccgtcgacga acacgattcc tgaacgtgct gaaaaccggt
     2881 tttccggctg cgccggcaac gcttcacggc cacgcaataa attgcgtccc cgttcaccgt
     2941 tttcggatgg gaagaacgcc ggaaacagga cttaccctgg ctgaatggcg tgaattttcg
     3001 cgctatgcac ttgcgtgcat actcatgcat gccgtaaaaa cagagcctgc gcgtttctga
     3061 cgggttttcg ggtggtttgt tgcctgtttt accggtttcc tgtcagaaac gccctgaggc
     3121 cgttctggcg gtgcgtacaa ttatgacttt atgttaaatc attagggagg ggattctgct
     3181 ggaacttagt ggatgttatt gcatatcaga caaatttcgg cagatttccc aagttatcga
     3241 gtttagtttt gtttggatct gtggttatgt agccatcgtc catcgcttcc actttggctc
     3301 ctaggttcca cttaccagta gagctgttct ttacaactgt cataaagctg gcttttccca
     3361 tgctgatcag ctcgctgatg aatttgcgag agctgattga gccggcagtg ttccatgagc
     3421 catctcggtt tattttatga acttttacga attcgatgtg ctgaccagca ctgtccattt
     3481 tgattgctga gatatagaaa tctaccatgg ttgcctcctg atggctgctg ggtgttttac
     3541 gtaacaaaag cccgcgttct gcgggctttt ttcatggaaa cattggatgc aagtgttcca
     3601 gctctgccgc taaagatttg cgactttttg acaggctgaa ttgggtctgc atgtttaccc
     3661 acgactctgc agagcggcct acga
//
