LOCUS       NZ_CP142928             5146 bp    DNA     circular CON 19-FEB-2024
DEFINITION  Escherichia coli strain B20105 plasmid pB20105_3, complete sequence.
ACCESSION   NZ_CP142928
VERSION     NZ_CP142928.1
DBLINK      BioSample: SAMN39500209
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5146)
  AUTHORS   Maguire,M.
  TITLE     Spatiotemporal and genomic analysis of carbapenem resistance
            elements in Enterobacterales from hospital inpatients and natural
            water ecosystems of an Irish city
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5146)
  AUTHORS   Maguire,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-JAN-2024) Bacteriology, University of Galway,
            University Road, Galway, Galway 000000, Ireland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method              :: Unicycler v. 0.4.9
            Genome Representation        :: Full
            Expected Final Version       :: Yes
            Genome Coverage              :: 299.0x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Date              :: 02/19/2024 10:49:49
            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)                :: 5
            CDSs (total)                 :: 5
            Genes (coding)               :: 5
            CDSs (with protein)          :: 5
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP142928.1.
            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..5146
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="B20105"
                     /isolation_source="River estuary"
                     /db_xref="taxon:562"
                     /plasmid="pB20105_3"
                     /geo_loc_name="Ireland"
                     /collection_date="2020"
     gene            join(5073..5146,1..835)
                     /locus_tag="VYI62_RS00005"
                     /old_locus_tag="VYI62_25990"
     CDS             join(5073..5146,1..835)
                     /locus_tag="VYI62_RS00005"
                     /old_locus_tag="VYI62_25990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009440807.1"
                     /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_011999031.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPEFSQWLDAVIQRVEMYNASLPVPLSP
                     AECRAIGRSIAKYTHRKFSPEGFSAVQAARGRKGGIAKGEAYEDKRFMALCMLENGYSQ
                     KAIAAMLNVHRNTIRNWAMHK"
                     /name="replication initiation protein"
     gene            complement(1028..1426)
                     /locus_tag="VYI62_RS00010"
                     /old_locus_tag="VYI62_25995"
     CDS             complement(1028..1426)
                     /locus_tag="VYI62_RS00010"
                     /old_locus_tag="VYI62_25995"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001222911.1"
                     /translation="MRISNIEWLKKRIEFIRKLGKQTARQRQIIDLLDNEDRLTEQERK
                     LLHVLATAEKNDLQAQESERKQAIQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDMLLQRLKPIKYDLDTCPNPDA"
                     /name="hypothetical protein"
     gene            1603..2529
                     /locus_tag="VYI62_RS00015"
                     /old_locus_tag="VYI62_26000"
     CDS             1603..2529
                     /locus_tag="VYI62_RS00015"
                     /old_locus_tag="VYI62_26000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_002430978.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPDRGGAKKDSGNLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYYRHLEQARMVGHDIREWLDTPVKQHELVRRLQHDIAREHGFD
                     MRDGVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2532..3065
                     /locus_tag="VYI62_RS00020"
                     /old_locus_tag="VYI62_26005"
     CDS             2532..3065
                     /locus_tag="VYI62_RS00020"
                     /old_locus_tag="VYI62_26005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001590995.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISLDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3131..3340)
                     /locus_tag="VYI62_RS00025"
                     /old_locus_tag="VYI62_26010"
     CDS             complement(3131..3340)
                     /locus_tag="VYI62_RS00025"
                     /old_locus_tag="VYI62_26010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_332880610.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLRKLPPDHTIPPDLTDE
                     HVPLYIRRLEYYRLIYRPKQTESY"
                     /name="hypothetical protein"
     Typing          3..655
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.566"
                     /coverage="88.0"
                     /evalue="0.0"
     Typing          1604..2526
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccttcgtatc tccggcaaag ggcgcgcgct tcttgcacgg tatatccagc agaaccagcc
       61 tcatgcacag ttctggctgg tttttgacgt tgaccgcgag ggggctgcga ttgactggag
      121 cgaccggaac gctcccgcgc cgaacatcac cgttaaaaat cctgtgaacg gacacgctca
      181 cctgctctac gcactcaaca tcgccgtgag aaccgcgcct gatgcctcgg ttaaggcgct
      241 gaaatatgcc gcagcggttg aacgttcgct gtgtgagaaa ctttgtgcgg atgtgaacta
      301 cagcggcctg atttgcaaaa atccgttcca cctggaatgg ctggtgatgg agtggcgcga
      361 ggaagcctat accctcgatg aactggctga ttatctcgat ttgagcgcct cagcgcgccg
      421 tagcatcgat aaacattacg ggatggggcg aaactgccac ctgttcgaaa tgacgcgcaa
      481 atgggcttac agggcgattc gtcagggctg gcctgaattc tcacagtggc ttgatgccgt
      541 gattcagcgt gtcgaaatgt acaacgcatc gcttcctgtt ccgctttcac cagctgaatg
      601 ccgggctatt ggcaggagca ttgcgaaata cacgcataga aaattctcgc cagaagggtt
      661 ttccgctgta caggccgcac gcggtcgcaa gggggggatc gctaaaggcg aagcctacga
      721 ggacaagcgt ttcatggcgt tatgtatgct ggagaatgga tattctcaga aagctattgc
      781 ggcgatgctg aatgtacatc gtaatacgat ccgtaattgg gcaatgcaca aatagcctta
      841 tcagataaca gcgcctttcc ggcggttttt tgagcagcta ttttttgggt ggtttctgct
      901 tgtcagccca gcaatggtgc ggcttttcgc ttgattgagg tggtagtgct cgccgcagtc
      961 tcatgaccga gcgtagcgag cgaatgagcg aggaagcacc agggcaccgg aacgtgaacg
     1021 ggaacactta cgcgtctggg tttgggcatg tgtctagatc gtacttaatg ggtttaagtc
     1081 tttgtaataa catgtctttt ttatagcata gctcgcctgt ttttgtgtcc accagtcctg
     1141 cttcgatcag tagtcctgcc gcgagaaaga gccggtgatt gcgttcccgt cgttgtttct
     1201 tcccctcgat tcgtttctgg atcgcctgtt ttcgttcgct ctcctgtgcc tgtaagtcgt
     1261 ttttttcggc tgttgctagt acgtggagaa gtttgcgttc ctgttctgtg agtctgtcct
     1321 cgttgtcgag caggtcaatg atctgtctct gtcgtgcggt ctgttttccg agcttcctga
     1381 tgaactcgat ccgtttcttc agccattcga tgttgctgat gcgcatgttg gtggtgctcc
     1441 ctggtgtttt tttgcggtgt gttgtggtcg tgcagtatat cgcttgcggt cggtgggtgc
     1501 aggggttacc ttccgtacta attcgaaaaa ttagaaggaa gcgcacttat atgtttctct
     1561 ccttcgttga gaaacagtgc gctcctgcgg agggctgaaa ccgtggcgac ctatcacctc
     1621 agcgttaaat ttggtggcaa gggacaggct gccaaccatg ccgattacat cgagcgcaaa
     1681 gagaaatacc gcgaccgtca agatttggaa tattccgcac acggaaacat gccggaatgg
     1741 gccagggata atccttccca tttctggcag gcggctgacc agtttgaacg tgcgaacggt
     1801 tcgacctata gggaacttga aattgcatta ccccgtgaac tgacaccgga acagcgcctt
     1861 gaactggtgc aggattttgt acgtcaggaa gctggcgaac ggcacgcctg gagttttgcc
     1921 attcacaatc cgaaagcgag cattgacggc ggcgaacagc ctcatgcaca tatcatgatg
     1981 agtcagcgtg tgaatgatgg cattgaacgt acaccggaac agtatttccg gcgctataac
     2041 gccaggtatc ccgaccgggg aggtgcgaaa aaggattccg gaaacctgac ccccactcag
     2101 caaaaagagc agttgcggga attgcgaaaa cgctgggagg tgaagcacaa cgaacatatg
     2161 agaaagcatg gctttgaaag gggcttcatt gactgccgga cgctgaaaga acagggcatt
     2221 gaacgacgtc ccgaagtgca tctgggtttt gaagctgccg gacgacttga tgatgcccag
     2281 cgtcatgaca tcatgcaaaa acggtctgaa ccggactatt accgccatct tgaacaggcg
     2341 cgaatggtcg ggcatgacat cagggaatgg ctggatacac cggttaagca acatgaactg
     2401 gtcagaaggc tgcaacatga tattgcgcgg gaacatggct ttgacatgag agacggagtg
     2461 agcagacaga accgaactga acctgaacgg gttaaatcac cgtcacgtgg attttctatg
     2521 ggattctgaa catggccagc acagaagaaa aattactcac gctcctgtta tcggtggagc
     2581 atctgcaaca taccgcaatg gagcaacaga aagctgttgc tgattctctg gctgtggcaa
     2641 gggaaacgct tcgcggatat cgggatattt ctgacggtgt ggcaaaacag gtcagggatg
     2701 aagtcagaaa tgaggtgcag aagctggacg tagcagggct gataggtgag cgcatcagcc
     2761 tggattttca gcggctggaa gagtcagtcg caaacatgaa ggcaaacgcg gatgccctga
     2821 acagggatat tgcgacaatt cacagcaata tcgtgcagga atacaacacc cttaaagggt
     2881 atagctggaa atggctgggt ggtgtgtcag tggcttttct ggttatgttc tgtgtgctcg
     2941 gatggggaat gaaaacaatg ctcgacagga actacaacgc cacagcggcg gtgtatcaga
     3001 aagttgtgac actggaagat aaactggcgg agaaacctgt cacgggtaag agccggaaaa
     3061 actgacgcgc ttcgcttgtc caacgcctca cggagcgcga aaggatttcg cgaaccgttc
     3121 accgtttttt tcaatatgat tctgtctgct ttggtcgata aatcagtcga tagtattcca
     3181 gccttcgtat atataacggt acgtgctcat cagtaagatc tggcggtatt gtgtgatcag
     3241 ggggaagttt tctcagatac tcacgaaatg cctggcttga tgccataaaa tctacagtag
     3301 catcgataat atgtggggtg ttttcaccta attttgccat gatgataatc cttatattat
     3361 cacggttcgt gaatgatagg gggtcactat tatttatgcg ttagtaaacc agaaaaaatc
     3421 ccccgttggc atagggggat atgtaaggag aaataacttc gcaggtgttc ttgtttgtat
     3481 aacgtgaaaa gactgcacgc aacttaataa gtctgccgta cttactttca gttttcaaca
     3541 taaggtttat aacaatgtat ggaatggaag tgagctttaa ggtttcagct ctaaaaaata
     3601 aaatatttat tagttggttg gttgttgttc ttgttctgta tgtatataaa cactatcgac
     3661 atattatgac cgggaacatt ccttaccccc tctgcgctct cagagggttt tttttgtcat
     3721 taattaataa tgaactgaaa tgcagttccg atacctccat ttgcacatta tccctgacat
     3781 atggtaccgg aaccgcatta attttatgtt ataagagttt atttttaatg tccagatggt
     3841 ttaatggtat ttatatgtaa ttagctgtat ggatagtact atttttattg tataacttgt
     3901 tgttttttat tgttttttgt gtggtgtgct aatctttaag ttataaaaaa accccttgga
     3961 acacaggggc aaaagtaagg aaaacaaatg gatgctcagt ttgtgtgaca ctttaaacta
     4021 atggaactat agagtggagg ttgttacagt cgcttttata aaacagcaac cagttttttt
     4081 caatagtctg atgatggttg tgacagtttt gtgatattgt tcaaaatgtt tcttgttgaa
     4141 tgtttgtttt ttggtctatt ggtgtctggt tttatttttt ctgctattac atatcaagaa
     4201 atgtgattgg tgtagcaaga gtggaatgcg atgtggataa actaattggt tgtcgaatct
     4261 aatttactta gaaaactaca cttgtttttg tgtatgaatt tagtgaattt gtctgtctat
     4321 gtgttttcgt gcatttataa atccttcgtc aggatcttaa atttagtgtt gaatatgtag
     4381 ggcctgtacg gtaattatta tttagcgtag ctacttcatc gttgttcgaa cacaaccaac
     4441 aacctgtaat tgttgtttct cttggttccc cacttttgtg gggtttttta tctcttccgt
     4501 gcatcgtaaa gcgcggactc cttctggaaa ggttgtttta gggcatcact gaggcatttt
     4561 ttgcgtttgt gaatattgag catccgataa ctaaaatatt tcccatagac tctgattctt
     4621 gccaccgacc ccaggtcggt tttttttgtc ctggcgagat gtgaagtttg gaaacaggaa
     4681 accccgtcag agcgccacgc accaggggag aaaacttgtc gttttgagcc gttcggtgtt
     4741 cagaacgcac gaaaccgatc gcacatcgct ttcgtgcata gttatgcaac gccctgaaaa
     4801 cgattctgac gcatttttct ggttcagcct ggtgtttcct tgtctttttg cgttttttgc
     4861 gtcagaaagc gattgagggc gttttatggg gtgcgtacaa cgggagttat ggtaaatgga
     4921 tcggatttgc gggaaggctc gacaggtttt gtcgttgggg gtagtgtaag cgactgaaaa
     4981 acaaacgccc ctgaaattcg tgtctatccg ccaagacttt cacgaaaata caggggcgat
     5041 gtcggtcgat aacctggaag gaatcgtaac acatgagcgc cgcgcttcaa tacttcgaag
     5101 aaaatttacc ccaccgtccc tatcacacgg atgatctcgc tttcgg
//
