LOCUS       NZ_CP129268             4148 bp    DNA     circular CON 13-JUL-2023
DEFINITION  Escherichia coli strain STEC1588 plasmid p_STEC1588_5, complete
            sequence.
ACCESSION   NZ_CP129268
VERSION     NZ_CP129268.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36269387
            Assembly: GCF_030413785.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4148)
  AUTHORS   Sui,X. and Yang,X.
  TITLE     Prevalence and Characterization of Shiga toxin-producing Escherichia
            coli isolated from asymptomatic carriers in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4148)
  AUTHORS   Sui,X. and Yang,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JUL-2023) National Institute for Communicable Disease
            Control and Prevention, Chinese Center for Disease Control and
            Prevention, NO.155 Changbai Road, Changping District, Beijing
            102206, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SOAPdenovo v. v3.9.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 43.0x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/13/2023 02:43:37
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,021
            CDSs (total)                      :: 4,901
            Genes (coding)                    :: 4,736
            CDSs (with protein)               :: 4,736
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 165
            CDSs (without protein)            :: 165
            Pseudo Genes (ambiguous residues) :: 0 of 165
            Pseudo Genes (frameshifted)       :: 73 of 165
            Pseudo Genes (incomplete)         :: 93 of 165
            Pseudo Genes (internal stop)      :: 43 of 165
            Pseudo Genes (multiple problems)  :: 41 of 165
            Pseudo Genes (short protein)      :: 2 of 165
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP129268.1.
            Bacteria and source DNA available from China CDC.
            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..4148
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC1588"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p_STEC1588_5"
                     /geo_loc_name="China: Guangxi"
                     /collection_date="2021"
     gene            complement(join(3852..4148,1..843))
                     /locus_tag="QYF47_RS25085"
                     /old_locus_tag="QYF47_25085"
     CDS             complement(join(3852..4148,1..843))
                     /locus_tag="QYF47_RS25085"
                     /old_locus_tag="QYF47_25085"
                     /EC_number="2.7.7.49"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761319.1"
                     /GO_function="GO:0003964 - RNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="reverse transcriptase family protein"
                     /protein_id="WP_032341919.1"
                     /translation="MNKPRFNGTPVASLDSLSAMLGIERKRLDWIVKSVSMSYKQFKVE
                     TGKNKKERQIFEPKRSLKGIQKKINKEIFEKIDYPHYLHGALSGRDYISNAAVHTRKRT
                     VICLDITNFYPSISKKDVCSIFKNLMRFSPEVSLCLTELVTLNNKVPQGGCCSSYIANL
                     LFFNSEYNLYNRLKSMGLSYSRLLDDITISSDKDLSSEEKTKVIKLVHGMVNQYRLSIN
                     ESKTTIEHSKDSSSKLSVTGLWVKHGVPKLTKENRRYIRYLVYICKKQGAYERHTKEYH
                     DLWNRCSGKVAQMSRLGHVQAVELRAILSEIMPVYDDYKISKLKLMAKHYLNKFTPPLT
                     DEQIRKIDRMLYDFDIVGRTNKNLAKLYRRKLVALLPDR"
                     /name="reverse transcriptase family protein"
     gene            complement(1417..1755)
                     /locus_tag="QYF47_RS25090"
                     /old_locus_tag="QYF47_25090"
     CDS             complement(1417..1755)
                     /locus_tag="QYF47_RS25090"
                     /old_locus_tag="QYF47_25090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001027011.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_301001415.1"
                     /translation="MNIPIKNNDLKTIARFDGKTLRDAFSRKIATFDGKILRDASLKKI
                     ATFDGKVLRDASLKKVATFDGKVLRDASLKKVATFDGQNLRDASSKIILSADAEVGIVV
                     MAFVAELI"
                     /name="hypothetical protein"
     gene            complement(2005..2328)
                     /gene="mobA"
                     /locus_tag="QYF47_RS25095"
                     /old_locus_tag="QYF47_25095"
     CDS             complement(2005..2328)
                     /gene="mobA"
                     /locus_tag="QYF47_RS25095"
                     /old_locus_tag="QYF47_25095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            2613..2807
                     /locus_tag="QYF47_RS25100"
                     /old_locus_tag="QYF47_25100"
     CDS             2613..2807
                     /locus_tag="QYF47_RS25100"
                     /old_locus_tag="QYF47_25100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041640.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3644..3847)
                     /locus_tag="QYF47_RS25105"
                     /old_locus_tag="QYF47_25105"
     CDS             complement(3644..3847)
                     /locus_tag="QYF47_RS25105"
                     /old_locus_tag="QYF47_25105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000427298.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="retron Se72 family effector protein"
                     /protein_id="WP_000427298.1"
                     /translation="MENGFVNFYDHVKGYGFIRRERGRDVFFRYDDFLFLGHDVDICKG
                     ILVRFKLEKTDKGFKAVAIQKV"
                     /name="retron Se72 family effector protein"
     Typing          complement(2338..2578)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.174"
                     /coverage="100.0"
                     /evalue="1.65e-119"
     Typing          2997..3445
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2009..2328)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.33e-62"
ORIGIN
        1 atggtactct ttcgtatgac gttcataagc accttgtttt ttacatatat aaaccaagta
       61 cctgatataa cgtctatttt cttttgttaa cttaggaacg ccatgcttta cccacaaccc
      121 agtgacacta agtttagaag acgaatcttt tgagtgctct atcgttgtct tactttcatt
      181 tattgaaagt ctgtactgat tcaccattcc gtgaacgagt tttattactt ttgttttttc
      241 ctctgatgaa agatccttat cagaggatat agtaatatca tctaaaagcc ttgaatatga
      301 aagccccata gacttcaatc tattatagag attatactca ctattaaaaa ataaaagatt
      361 tgcaatataa ctagaacagc acccaccctg aggaacctta ttattcaacg tcacaagttc
      421 cgttaagcac aaagaaacct caggagaaaa acgcattaaa tttttaaaaa tagaacaaac
      481 atctttttta ctaatgctgg gataaaaatt ggtgatatca agacatataa ctgttctttt
      541 cctagtatga acagcggcat tagatatata atcgcgacca cttaacgccc catgcaaata
      601 atgagggtaa tcaattttct caaaaatttc tttatttatt tttttttgaa ttcctttcaa
      661 agatctcttg ggttcaaaaa tttgcctttc ttttttattc ttccctgttt caaccttaaa
      721 ctgcttgtac gacatcgata cagacttgac tatccagtcc aatctttttc tttctatgcc
      781 taacatcgca gataaagaat ccaaagatgc aacaggagtt ccattaaacc tgggtttatt
      841 catgatgttt gagttaaaag tcgattagtt aaaaagtttc gatacgtaat ctattacttt
      901 aaacataatc aagcacatag aaaacaaaaa ctgtgttttt ttcagtgcct ccagagagcc
      961 aacctctctt tttttcttca tctgaccgtc tccagaacaa gatgaagagc tcttggttac
     1021 gttaatgttg atgttgataa taaacatgat gcaactccta ttggttatga aattttgcca
     1081 gaccagtagg aaagcaagga aaaactctat tggctctttg ggacttttaa ctcacattgc
     1141 cagacaatcg tcgctattct tttagtgctg atacacgctc aggggcgttc tcaccattaa
     1201 ttagcggcca ggccggtcat gatctcatgc gagatcgcct taaaaacaag gcatcggttt
     1261 ccttgcgcaa catacacgta accatttgtt aaagagcgag agccaggcgt ggttcgcccg
     1321 cttcgctgat tattataaag ttttttatct ttctgtcacc aacaagaaag cgccttatcc
     1381 tgccagcgat aggctaaaag gtatgcagca tgagattcaa atcaactcag ctacaaaggc
     1441 cataacaaca atcccaacct cagcatcggc actcaggata atttttgaac tagcatctct
     1501 taaattctga ccgtcaaagg ttgctacttt ttttaaagag gcatccctta aaaccttgcc
     1561 atcaaaagtc gccacttttt ttaaagaggc atcccttaaa accttgccat caaaagtcgc
     1621 tatttttttt aagctagcat cccttaaaat cttgccatca aaagtcgcta tttttctcga
     1681 aaaggcatct cttaaggttt taccgtcaaa ccgagcaata gtttttaagt cattgttttt
     1741 tattggaata ttcatttatc accaatagta atttaaccaa ttgtatttac cataatccct
     1801 taattgtacg caccgctgaa acgcgctgaa cgcaattctg acgcaaatac cgcaaaaaga
     1861 gaggtttagc cccgaaaaaa caggaaggat gcgtcaggat cgttttcagc tcactgcata
     1921 gctatgcatg aaagcgaatg gtgatcactt tgggagctta cggtgttcat accgtctgtt
     1981 ttcgacagtt ttctccccgg gaagctaatc tgccataagc ctggataaca gggcacggtg
     2041 atactccgta atagcgatca gtacctccgc atactccctg tccccgacac gcttgccgtc
     2101 gataaagagt tttttctgta acgcccccag tctcataact tctttcagta cccgatcatc
     2161 agtcagtgag ttaactttct taccgagagc tgccgcccgt aaaaaaccgg aaacggtctt
     2221 gccgcattca gcagcccttt ttctgatttc ctggtcttct tctgccgtca gacgaacagg
     2281 gcgactgata gcccgcctgc gcgtattact tccacttcgt tttgtcataa aacatggctc
     2341 cgtatctgac atggggtgtc ggggcaaagc cctgaccagg gtaattgtaa tagcgtgcat
     2401 gtatgcgcgg tataacaatt acacatcctg tcctgtcagc aagctcgaat taccgacaaa
     2461 ggcacggcag ttttttggca gtgacagtgt tgtctgacag aaatgcccgt caaagagtca
     2521 gacagcagaa taccgacggt aaaacagtcg aaaagtggta cgcgatataa tcacacaaag
     2581 cagatgacag aaagaacgga gaaaacagaa agatgaacaa gcagcagcaa accgtactca
     2641 acatggcagg attcataaaa agccagagcc tgacgctgct cgaaaaactg gacgcacttg
     2701 atgctgacga acaggcagcc atgtgtgaga agctgcacga actcgcggaa gaacttcaga
     2761 acagcataca gacacgcttt gaagcggaaa atcgcaccgg gatataacgc atcaggacag
     2821 gatgcagaac ggcatagagg agcgtaagga gaaaatgtca cataaggcgc tcttccgctt
     2881 cctcgctcac tgactcgcta cgctcggtcg ttcgactgcg gcgagcggtg tcagctcact
     2941 caaaggcggt aatacggtta tccacagaat caggggataa agccggaaag aacatgtgag
     3001 caaaagacaa aggcccagaa gaagggcgag caggaggcgt ttttccatag gctccgcccc
     3061 cctgacgagc atcacaaaaa ccgacgctca agtcagaggt ggcgaaaccc gacaggacta
     3121 taaagatacc aggcgtttcc ccctggaagc tccctcgtgc gctctcctgt tccgaccctg
     3181 ccgcttaccg gatacctgtc cgcctttctc ccttcgggaa acgtggcgct ttctcatagc
     3241 tcacgctgtt ggtatctcgg cccggtgtag gtcgttcgct ccaagctgga ctgtatgcac
     3301 gaaccccccg ttcagtccga ccgctgcgcc ttatccggta actatcgact tgaatccaaa
     3361 ccgagaagac acgacttatc gccactggca gcagccactg gtaaccgaat tagaggagtt
     3421 agccttgaag tcatgcgccc gttaaggcta aactgaaaga acaagttttg gtgactgcgc
     3481 tcctccaagc cagttacctc ggctcaaaga gttggtagct ctgagaacct tcgaaaaacc
     3541 gccctgcaag gcggtttttt cgtttacaca gcaagagatt acgacgagat agaaaggatc
     3601 tcaagttctc atatcataaa aacaagctga cacatccacg atgttatacc ttttgaatcg
     3661 ctacagcttt aaacccttta tctgtttttt ctaatttaaa cctaactaaa atacctttac
     3721 atatatcgac atcatgccct aaaaacaaaa aatcatcata ccgaaagaaa acatcacgtc
     3781 cacgctcacg ccttataaag ccataccctt taacatggtc ataaaaatta acaaatccat
     3841 tttccatata atcacctatc tggaagtaat gccacaagct tacgtctata tagttttgca
     3901 agattcttat tagtccgccc tactatatca aaatcataga gcatcctatc tattttcctt
     3961 atctgctcat cagttaaagg cggcgtaaat ttatttagat aatgcttagc catcaacttt
     4021 aatttagata tcttgtaatc atcataaact ggcattatct cagaaagaat cgccctcaat
     4081 tcaaccgcct ggacatgccc aagcctcgac atttgagcaa ccttgccaga gcatctattc
     4141 cataaatc
//
