LOCUS       NZ_CP116165             3174 bp    DNA     circular CON 25-FEB-2024
DEFINITION  Escherichia coli strain DETEC-P351 plasmid pDETEC10, complete
            sequence.
ACCESSION   NZ_CP116165
VERSION     NZ_CP116165.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31988454
            Assembly: GCF_027944875.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3174)
  AUTHORS   Moran,R.A., Baomo,L., Doughty,E.L., Guo,Y., Ba,X., van Schaik,W.,
            Zhuo,C. and McNally,A.
  TITLE     Extended-spectrum beta-lactamase genes traverse the Escherichia coli
            populations of ICU patients, staff and environment
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3174)
  AUTHORS   Moran,R.A., Baomo,L., Doughty,E.L., Guo,Y., Ba,X., van Schaik,W.,
            Zhuo,C. and McNally,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JAN-2023) Institute of Microbiology and Infection,
            University of Birmingham, Institute of Microbiology and Infection,
            Birmingham B15 2TT, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/25/2024 01:52:08
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,895
            CDSs (total)                      :: 4,775
            Genes (coding)                    :: 4,533
            CDSs (with protein)               :: 4,533
            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)              :: 242
            CDSs (without protein)            :: 242
            Pseudo Genes (ambiguous residues) :: 0 of 242
            Pseudo Genes (frameshifted)       :: 84 of 242
            Pseudo Genes (incomplete)         :: 155 of 242
            Pseudo Genes (internal stop)      :: 54 of 242
            Pseudo Genes (multiple problems)  :: 50 of 242
            Pseudo Genes (short protein)      :: 4 of 242
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP116165.1.
            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..3174
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="DETEC-P351"
                     /isolation_source="ICU patient rectal swab"
                     /db_xref="taxon:562"
                     /plasmid="pDETEC10"
                     /geo_loc_name="China: Guangzhou"
                     /collection_date="2019-08-13"
     gene            complement(187..615)
                     /locus_tag="PIC26_RS24420"
                     /old_locus_tag="PIC26_24415"
     CDS             complement(187..615)
                     /locus_tag="PIC26_RS24420"
                     /old_locus_tag="PIC26_24415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /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_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     gene            773..943
                     /locus_tag="PIC26_RS24425"
                     /old_locus_tag="PIC26_24420"
     CDS             773..943
                     /locus_tag="PIC26_RS24425"
                     /old_locus_tag="PIC26_24420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            907..1335
                     /locus_tag="PIC26_RS24430"
                     /old_locus_tag="PIC26_24425"
     CDS             907..1335
                     /locus_tag="PIC26_RS24430"
                     /old_locus_tag="PIC26_24425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(2171..2365)
                     /locus_tag="PIC26_RS24435"
                     /old_locus_tag="PIC26_24430"
     CDS             complement(2171..2365)
                     /locus_tag="PIC26_RS24435"
                     /old_locus_tag="PIC26_24430"
                     /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_001485273.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2649..2972
                     /gene="mobA"
                     /locus_tag="PIC26_RS24440"
                     /old_locus_tag="PIC26_24435"
     CDS             2649..2972
                     /gene="mobA"
                     /locus_tag="PIC26_RS24440"
                     /old_locus_tag="PIC26_24435"
                     /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_052584083.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQVIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          2401..2640
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          complement(1611..2136)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.03"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          2650..2969
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="2.92e-61"
ORIGIN
        1 taagggatta tggtaaatat atgagctatg cgataacttt aactgtgaag cgatgaaccc
       61 attacaggca aagccaatta ctcctgacag tggtttagcc agaagcaggg ctaccaagac
      121 caatgcaata agtaatatat cgttttgcta tcgtgcatcg ctcgcgctca gttccattgt
      181 gcttttttaa gctgtcgttt ttcttacggt atataccggt tttttatggc gtggtttctt
      241 aacttgttca gctactgatg gacccattgt atctaggtag tcaactagct ttgttagatc
      301 ataaatattg cgaccaccat atcggcgatc actcttcgat gttggtttct tgtccaagag
      361 attagctttt tcaagatcat tgatagctct ctgaacagtc cgtacagaaa cccccatacg
      421 tatggctaga ctttccattg acggatgcgg ccactcttgc aaactccacc agtgaacgat
      481 caggttaagt agtgtgttaa aggccactga agttagcttt ttctcgtttt gtataaaaaa
      541 caatacggta ggcactgctg tccagccaag agacaaaccg ccagctttcc atttattctt
      601 aacggagtaa gtcattgatt ttcctaagcc ccaaaatatt taaagtatat attatatggt
      661 atattcatat gaatagggtg acactagcgc cattattgtg caaccaaaaa agactactct
      721 gaaaacgagg aaaagatttt ttcctgcctg aattagatac ggagttagcg atatgaaaac
      781 cgaacaacgt catgatcttg ttaaagatat tgaggttttt ggcgtatcct tgtctctgtt
      841 gatttccaga gcgaatgaga agtctgttac aatgccatct ggtctaagtc gggagcagag
      901 aagagcatgg gcagcggagc aggcgcgcaa aatccacaat tgaatattgt ctcattctct
      961 gagaccttca acctttatta cacatccaga tattctgcaa aaacactcga taaaatcgat
     1021 gatttcattg agcattttga aaaatacaat ctctttggcg atcctttaaa aggatatcca
     1081 gcttggactg gcaaagtatc gccatcgtgg aaagtgcctg atcattacga aaacaaagaa
     1141 gctattgaga agtatgctag agctaacaaa ttatggcatg ctcatttagg cgatccggtt
     1201 tttaaagata cgtttcatgg gaaatacaag gtttctgact gggttattca tttccagcgg
     1261 ctgacaccga accatataaa gcttttagag cttggatacc atgacccaat gaagctacct
     1321 caaaactttg aatgatcgag cggcaggcta aatgaaatct tgagattcat tcagtctcgt
     1381 cgtaatctca ctattgtaaa aacgaaaaaa ccaccctggc aggtggtttt tcgaaggtta
     1441 gttaatcctg gcagattctc taaccgtggt aacagtcttg tgcgagacat gtcaccaaat
     1501 actgtccttt cagtgtagcc tcagttaggc cgccacttca agaactctcg ttacatctct
     1561 cgcacatcct gcttaccagt ggccgttgcc agtggcgtta agtcgtgtct taccgggttg
     1621 gactcaagac gatagttacc ggataaggcg cagcggtcgg gctgaacggg gggttcgtgc
     1681 acacagccca gcttggagcg aacgacctac accgaaccga gataccaaca gcgtgagcta
     1741 tgagaaagcg ccacgcttcc cgaagggaga aaggcggaca ggtatccggt aagcggcagg
     1801 gtcggaacag gagagcgcac gagggagctt ccagggggaa acgcctggta tctttatagt
     1861 cctgtcgggt ttcgccacct ctgacttgag cgtcggtttt tgtgatgctc gtcagggggg
     1921 cggagcctat ggaaaaacgc caacggcgcg gcctttgtcc ctggcttcgg ctttttgctc
     1981 acatgttctt tccggcgtta tcccctgatt ctgtggataa ccgtattacc gcctttgagt
     2041 gagctgacac cgctcgccgc agtcgaacga ccgagcgtag cgagtcagtg agcgaggaag
     2101 cggaagagcg ccttatgtga cattttctcc ttacgctcct ctatgccgtt ctgcatcctg
     2161 tccggatgcg ttatatcccg gtaagatttt ccgcttcaaa gcgtgtctgt atgctgttct
     2221 gaagttcttc cgcgagttcg tgcagcttct cacacatggc ggcctgttcg tcagcatcaa
     2281 gtgcgtccag tttttcgagc agcgtcaggc tctggctttt tatgaatcct gccatgttga
     2341 gtacggtttg ctgctgcttg ttcatctttc tgttttctcc gttctttctg tcatctgcgt
     2401 tgtgtgatta tatcgcgtac cacttttcga ctgttttacc gtcggtattc tgctgtctga
     2461 ctctttgacg ggcatttctg tcagacaaca ctgtcactgc caaaaaactg ccgtgccttt
     2521 gtcggtaatt cgaacttgct gacaggacag gatgtgtaat tgttataccg cgcatacatg
     2581 cacgctatta caattaccct ggtcagggct ttgccccgac acccatgtca gatacggagc
     2641 catgttttat gacaaaacga agtggaagta atacgcgcag gcgggctatc agtcgccctg
     2701 ttcgtctgac ggcagaagaa gaccaggtaa tcagaaaaag ggctgctgaa tgcggcaaga
     2761 ccgtttccgg ttttttacgg gcggcagctc tcggtaagaa agttaactca ctgactgatg
     2821 atcgggtact gaaagaagtt atgagactgg gggcgttaca gaaaaaactc tttatcgacg
     2881 gcaagcgtgt cggggacagg gagtatgcgg aggtgctgat cgctattacg gagtatcacc
     2941 gtgccctgtt atccaggctt atggcagatt agcttcccgg agagaaaact gtcgaaaact
     3001 gacggtatga acaccgtaag ctcccaaagt gatcaccatt cgctttcatg catagctatg
     3061 cagcgagctg aaaacgatcc tgacgcatcc ttcctgtttt tccggggtaa aacatctctt
     3121 tttgcggtgt ctgcgtcaga atcgcgttca gcgcgtttca gtggtgcgta caat
//
