LOCUS       NZ_CP033397             4097 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain WCHEC020031 plasmid p1_020031, complete
            sequence.
ACCESSION   NZ_CP033397
VERSION     NZ_CP033397.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08932733
            Assembly: GCF_003711045.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4097)
  AUTHORS   Liu,L., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain WCHEC020031
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4097)
  AUTHORS   Liu,L., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-OCT-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. 0.4.7
            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_003711045.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 01:48:30
            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)                     :: 4,783
            CDSs (total)                      :: 4,667
            Genes (coding)                    :: 4,429
            CDSs (with protein)               :: 4,429
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 238
            CDSs (without protein)            :: 238
            Pseudo Genes (ambiguous residues) :: 0 of 238
            Pseudo Genes (frameshifted)       :: 77 of 238
            Pseudo Genes (incomplete)         :: 153 of 238
            Pseudo Genes (internal stop)      :: 49 of 238
            Pseudo Genes (multiple problems)  :: 34 of 238
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033397.1.
            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..4097
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WCHEC020031"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p1_020031"
                     /geo_loc_name="China: Chengdu, Sichuan"
                     /collection_date="2016"
     gene            complement(join(3690..4097,1..9))
                     /locus_tag="EDM51_RS00005"
                     /old_locus_tag="EDM51_00005"
     CDS             complement(join(3690..4097,1..9))
                     /locus_tag="EDM51_RS00005"
                     /old_locus_tag="EDM51_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="WP_057103209.1"
                     /translation="MSDQKNNLDLQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNILTPDLNAKLNEK"
                     /name="helix-turn-helix domain-containing protein"
     gene            357..1031
                     /locus_tag="EDM51_RS00010"
                     /old_locus_tag="EDM51_00010"
     CDS             357..1031
                     /locus_tag="EDM51_RS00010"
                     /old_locus_tag="EDM51_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001259273.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_072644308.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRSRESQL
                     IQVKFFTAEIKAKFASRGELAHQAQQAYHRALVQIYGDNLQIIKGYYSERQECAMTFNE
                     GHPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEAEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISSLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     gene            complement(2021..2215)
                     /locus_tag="EDM51_RS00015"
                     /old_locus_tag="EDM51_00015"
     CDS             complement(2021..2215)
                     /locus_tag="EDM51_RS00015"
                     /old_locus_tag="EDM51_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_072644309.1"
                     /translation="MNKQQQIALNMARFIKSQSLTLLEKLDALDADEQATMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3262..3525)
                     /locus_tag="EDM51_RS00025"
                     /old_locus_tag="EDM51_00025"
     CDS             complement(3262..3525)
                     /locus_tag="EDM51_RS00025"
                     /old_locus_tag="EDM51_00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891192.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein L"
                     /protein_id="WP_072644307.1"
                     /translation="MAVYTSETKKFLDSVSHDKTWWTSRYNPADDVPVSGIYRCTVCGK
                     EITSNKDDPFPPQNHHQHSQSQAIKWQLIVRTDTQGNGCGSK"
                     /name="protein L"
     Typing          1864..1945
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.857"
                     /coverage="98.0"
                     /evalue="1.43e-25"
     Typing          complement(2237..2321)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.393"
                     /coverage="87.0"
                     /evalue="5.15e-16"
     Typing          complement(1040..1563)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.604"
                     /coverage="99.0"
                     /evalue="7.85e-161"
ORIGIN
        1 atctgacata taccaacctg ctaagctgaa gtcttcatag aagacttcag cttagcaggt
       61 tggtaaatta attcatataa ttagtacgac accatcgcgc ttataatatc attatattta
      121 actatactta atctacactc acctcttggt agcgcgatta agttacgcag ctcccttgag
      181 gctctaaacc tccctttagg tgggcagcga ttaagttacg cgtcttcctt caggagcttg
      241 aaaccgccct ctcggttagt tttaaccctg aggaactaca acttaaactg tttgctaacg
      301 ttagtttttg ttgttaaaac cgcctttaga ggcggttttt ttatgcgcga aataaaatga
      361 gaacaatagt ttacgtagat gggtttaatt tttatcacgg attggttaag cgttcgggat
      421 ataagtggtt agatctctat aaactctttg aagaacaact acttccgata agatcaagag
      481 agtcacagtt gattcaggtg aagttcttta ctgctgagat caaagcaaag tttgcttctc
      541 ggggtgaatt ggcgcaccag gctcagcaag cctaccatcg agcattagta cagatctatg
      601 gcgataacct acagataatc aaaggttatt actcagagcg tcaggaatgt gcaatgacct
      661 ttaatgaggg gcatccgcca tcaaaaacgg atagaacaac ggtctggaag ttagaagaaa
      721 agcagaccga cgttagaatg gctttagaaa tgtatcgcga tgcgatccgt ggtgaggcag
      781 aacaattggt tctctgtact aacgactcag atatgatacc gccaatagaa atgataaaag
      841 ccgatcgacc tgagttaaaa ataggaattg tagtgccaag ggaacaagat actagtcgag
      901 tgattagtag tctggctagt ttaggggatt ggagcttgcc atatgtatcc tatgaagcct
      961 taagattagc tttattgcca gataaagtcc ccactaggcg aaagccaata ctgaagccaa
     1021 atcactggta aacagccgga tcttcttgtg atccttttac tctcgtcgta atctcatgtc
     1081 ctgcaaacaa aaaaaccacc gctaccaacg gtggtttgtt tgccggaatc aagagctacc
     1141 aactcttttt tccgaaggta actggctttc acggagcgca gataccaaaa ctgtccttcc
     1201 agtgtagccg cagtcaggcc atcacttcaa gaactctgta gaagcacttc tactactctg
     1261 ctccgtgaat cctgttacca atggctgctg ccagtggcga taagtcgtgt ctttccggat
     1321 tggactcaag acgatagtta ccggaaaagg cgcagcagtc ggactgaacg gggggttcgt
     1381 gcatacagtc cagcttggag cgaactgcct acccggaact gagtgtcagg cgtggaatga
     1441 gacaaacgcg gccataacag cggagtgaca ccggtaaacc gaatggcagg aacaggagag
     1501 cgcacgaggg agccaccagg gggaaacgcc tggtatcttt aagtcctgtc gggtttcgcc
     1561 acctctgact tgagcgtcga tttttgtgat gctcgtcagg ggggcgaagc ctatggaaaa
     1621 acgccaccgg cgctgccttt ttccgggttt cgtcttgttg ctcacatgtt ctttccggcg
     1681 ttatcctcgg attctgtgga taactgtatt accatctttg agtgagcaga caccgctcgc
     1741 cgcagccgaa cgaccgagcg tagcgagtca gtgagcgagg aagcggaaga gcgcctgaac
     1801 aggcatattc tccttacgca tctgtgcggc atttcactcc ggatatggca aacttttcat
     1861 acaatccgca ctgatgctgc atgattaagc ccgtatacac tccgctatct ctacgtgact
     1921 ggttcagggc ttcgccccga accccactga cgcgccctga cgggcttgtc tgctgccgaa
     1981 aacgctcgcg gacaagccgt gagcgcctcc gtcagcttcg ttatgtccct gtttcacttt
     2041 cggtctcaaa gcgaacctgg atgctgttct ggagctcttc cgcgagttcg tgcagtcgtt
     2101 cgcacatggt cgcctgttcg tcggcatcca gagcatccag tttttcaagt agtgtcaggc
     2161 tctggctttt gataaatcgc gccatattca gcgcaatttg ttgctgtttg ttcaccttcc
     2221 gttgttctcc gtcagtaccg ggtgtcgggt ggaccctgac caggtggtaa ttgtaagacg
     2281 ttgcgggcga cggtattaca attgcacatc ctgtcctgtt tctttagggg tcagtttgga
     2341 tatagagaat tattgtacgg taagcctgtt ttttgaacag acttacctat agcaataggg
     2401 tgtactcccg cgctatacgg cattttcaga ggtttgacct taatcggata acctaaatgc
     2461 gatactgcaa gagcgacaac ttaaaagcga tagccactga cgcaaaatca accccttacg
     2521 aaccaagatt ggttaaataa tgcgcttaac gtacaaaaat ttccgatctc caaactgacc
     2581 ccttcttcgc ctcttatgtt tctcgaatga atcgatgggg acaggaaatg ttttgtggcc
     2641 accgccgctt cgccggcacc acaaaactgt cggacaagat gtgtttttgg agtaccgccg
     2701 gcaccaaaaa catttcatca ggcgcagcct gataccctga atttcgtacg tacgaaattt
     2761 tgcttttgtt cagatcgagg gcaggattcg caaagtgctg gcgtttgtac tcacatcctt
     2821 tagacgttgc gatgcaggat agggcagacg ccgcaaaatg acgtcatttg cggtatctgc
     2881 cccgaaaaca gaatgttttc tcctgagcct gcagctggct ctcagaaccc ctaccgcctc
     2941 gcaaagctcg ttgctcaacg cctcacgacc gcacagtaaa ctgtgcaccc gttcaccgtt
     3001 atcgatgggg ttcagcgagc cttttgagca gttcgcagga ttttagccgc taaaattccg
     3061 gccaggcatg ttcgtgcata gccatgcaga tgcgcagaaa tcatcaggcg cgttttttca
     3121 cgatatggac agggaaaggt gccggaaacg cagaggacgc ggcagaaacg cgctgagggc
     3181 ctctcagggg gtgcgggcaa cggatgttat gtttaatccg tctgaccgct aggtacaaaa
     3241 aagcccctaa gggcttttga gttatttaga accacaacca tttccttgcg tatctgttct
     3301 gacaattaat tgccacttga ttgcctgact ttggctgtgt tgatgatggt tttgcggcgg
     3361 aaacgggtca tctttattgc tagttatctc ttttccgcaa acagtacaac gatagatccc
     3421 tgataccggt acatcgtcag ctgggttata tcgtgatgtc caccaagttt tatcgtgaga
     3481 aacactgtct aaaaattttt tagtctcaga ggtgtataca gccatttgcc tttcctttcc
     3541 aaaatgtata gggcggaggg ggatcctttt tataagtttg gtttttttta gcgtttttca
     3601 atcatctggc gatgattgaa aaacgctaaa atagagatgc tatggtaaat ataagctgta
     3661 atggtctgat ttttaaaatt attttatggt tacttttcgt tcagtttggc attaaggtct
     3721 ggcgtaagaa tgtttagtga cttaactaaa agagacatat cgtaaatgtt tcgccctttg
     3781 tacttagggt tgtccttgct tgtacgaatt tttgtaagca atccgtaatt ttcaagttct
     3841 tggagtgagc gttgaactgt tcttgatgaa actcccattc taaccgcgat gctctcttga
     3901 gatggatgtg gccaatcata gggtttccac cagtggatga ttagatgaag tagcacattg
     3961 aatgttgtgg gggtcatatt gagtgcgccc tgcaggaaga aaagggatgt aggaatggct
     4021 gaccatccca tgcttaacgc ctccttcccc catttagatt caagtgtctg tttttgaagg
     4081 tctaaattat ttttttg
//
