LOCUS       NZ_CP031657             4073 bp    DNA     circular CON 17-JUN-2024
DEFINITION  Escherichia coli strain UK_Dog_Liverpool plasmid pCARB35_04,
            complete sequence.
ACCESSION   NZ_CP031657
VERSION     NZ_CP031657.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09829654
            Assembly: GCF_003413625.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  AUTHORS   Phan,H.T.T., Stoesser,N., Timofte,D., Reynolds,M., George,S. and
            Hubbard,A.
  TITLE     Occurrence and characterisation of Escherichia coli Sequence Type
            410 co-harbouring blaNDM-5, blaCMY-24 and blaTEM-190 in a dog from
            the United Kingdom
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4073)
  AUTHORS   Phan,H.T.T., Stoesser,N., Timofte,D., Reynolds,M., George,S. and
            Hubbard,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-AUG-2018) Nuffield Department of Micriobiology,
            University of Oxford, Headley way, Oxford, Oxford OX3 7BN, United
            Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 24-MAY-2018
            Assembly Method                   :: Unicycler v. v4.1
            Assembly Name                     :: ULIV_CARB35_1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 169.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003413625.1-RS_2024_06_17
            Annotation Date                   :: 06/17/2024 06:57:34
            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)                     :: 5,016
            CDSs (total)                      :: 4,893
            Genes (coding)                    :: 4,631
            CDSs (with protein)               :: 4,631
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 262
            CDSs (without protein)            :: 262
            Pseudo Genes (ambiguous residues) :: 0 of 262
            Pseudo Genes (frameshifted)       :: 91 of 262
            Pseudo Genes (incomplete)         :: 170 of 262
            Pseudo Genes (internal stop)      :: 51 of 262
            Pseudo Genes (multiple problems)  :: 43 of 262
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP031657.1.
            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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="UK_Dog_Liverpool"
                     /isolation_source="foreleg infected wound"
                     /host="dog"
                     /db_xref="taxon:562"
                     /plasmid="pCARB35_04"
                     /geo_loc_name="United Kingdom: Greater London"
                     /lat_lon="51.4309 N 0.0936 W"
                     /collection_date="2016-12-06"
                     /collected_by="Axiom Veterinary Laboratories Ltd, Newton
                     Abbott, UK"
                     /genotype="ST410"
     gene            complement(join(3301..4073,1..1375))
                     /gene="mobQ"
                     /locus_tag="DL545_RS26770"
                     /old_locus_tag="DL545_26770"
     CDS             complement(join(3301..4073,1..1375))
                     /gene="mobQ"
                     /locus_tag="DL545_RS26770"
                     /old_locus_tag="DL545_26770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029354.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            1554..1808
                     /gene="mobC"
                     /locus_tag="DL545_RS26775"
                     /old_locus_tag="DL545_26775"
     CDS             1554..1808
                     /gene="mobC"
                     /locus_tag="DL545_RS26775"
                     /old_locus_tag="DL545_26775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            2342..3043
                     /locus_tag="DL545_RS26785"
                     /old_locus_tag="DL545_26785"
     CDS             2342..3043
                     /locus_tag="DL545_RS26785"
                     /old_locus_tag="DL545_26785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(1018..1376)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1377..1553
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2343..3043
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3..1462)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.538"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3305..4071)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.922"
                     /coverage="99.0"
                     /evalue="1.12e-164"
ORIGIN
        1 gcagaaggta acaggtcatt tccccgttac caggcatggg agcctcgcca taccccgtaa
       61 cgactgctct cagcacccct gaatccataa cggcattgtc atttttcctg agctgctccg
      121 cgcgactacg ttcagtatct tcctgttcct tccggcgcaa ttcctcttca cgtttaagca
      181 actgggctct gagagctgca aggccggatt ccccccactg ctgccactgt ttttcaaatg
      241 ccatctgact cgcgggaatg tcctgtttct ccaccttccg gtaatgctgt cgtaattttt
      301 ccatttgctg gctcagagac tggatttttc cctgctcact acggtattcc ggtgccgccc
      361 attgcatcag gggaatacgg gaaaaaccgg acgaaaacgg cgatgatttt ttcaggctgg
      421 cagcatggct catcgcttcc tttcgttcgg tgttcagctc ttcccagcgt ctgcgcgtcg
      481 cctgcatatc tgccatcatc gacatggcat tactggtgag tttccatgcc gagttactgt
      541 ccttcggcaa cgcttcgata atgtcacgta gtgtgtacga agttgcgttg tcaggaagcc
      601 cgatattcag aaggtcagcc acacggcggg caggctctgt cagccctccg ttcctgagtt
      661 cggtgcggga aatctgtatt tccaggttaa gcctgttaat cagacgattc tgttcgccgc
      721 gttctgtttc gataccgcgt gtttccatcg cacaggcaga ctttccgagg tgaataccag
      781 gcgttttctc aagcccctgt cgctcgtatg aacgatggtc tatctcttcc tgataaccgg
      841 cgttcgccag tgccctgttt gcatggtcag cccatgatgc ccgccacgtc tcggcatgtg
      901 tccggtcgtt ccagtccctg acctttccgc tgaacccagc aggtccgata gccctcgtgg
      961 tcagcatgat gtgcgcatgg ggatttgttt tatccatgtg atggaacgcc acatcagcaa
     1021 tcatgccctg actgacaaag ttttctctga caaaggcgag aacggtttcc cgtgcggcat
     1081 cctgcggcag ttcgtggggg atggcgagtt caatttcccg cgcaagttgt gagttcttcc
     1141 ggcgttcggc cttctcaacg gcattccaga gttcggcacg gttcgtacac caggcagggg
     1201 cggtggcggg ggtcagaatc acagcctcag ccacaccgct tttgcgggtg tagtcgtgag
     1261 tcagtccggt acgctcatca agcatcagtg aaccggaacg ataggcagcg gaagctacgg
     1321 cgctgtagcc gctgcttctg gagataattt tcatgctgag atgataaatc gccatttctg
     1381 ccgtaatgcc tttttgtagt tttctttcag ccccgcaggg cgcacacaat cgaaacggag
     1441 tggagattgt ataagtgcgc acttcgtgat ttgccgtgca ttatgccagc tcagttttta
     1501 aactaccagt gacgcgctaa aatgcgattt ttcatcgcgc acggagttac atcatgagca
     1561 gaacgctcga acagaagatt gctgatgctg aggcgagatt acagcgcctg aaggcgaaga
     1621 gccggagcct ggacacagcg cagaaggttg ttgtgggtgc agcattgctg gcaaaggtca
     1681 gaaagccgga ggaggtgcag ttgcgtgcct ggttactcca gttcctgaag gcagaggtga
     1741 cacgacaggc tgatgtgacg cgcatactgc cgctgattaa cgagctggag gcgctgccag
     1801 aacagtgatt gtatcgtccg ctcgccgcag ccccagcgac cgagcgttag cgagcgagtg
     1861 ggcgaggaag cggaagtgaa tcagtcgcca ggttgagcac atacgcacgg tttttcggca
     1921 ggtgatatgc gctgaacccg catgaatact gggtttccac agggttggag ggggtgtatt
     1981 cgaaacttgc aattctgctt tattgcaacg cattgttttt attggttttt tgttttcagc
     2041 accccaagtt atccacaggc tcgccgttaa gtttttaaga tcttattttt agatcttttt
     2101 ttttaaaacc tttttaggtc ttgtaacacc atgattttaa agatgttctg gcaagataag
     2161 tggagctttt gggggtgaaa ggtggagctt ttgggggtga aaggtggagc ttttgggggt
     2221 gaaaggtgga gcttttgggg gtgtaatcca cagaaaaagg gggttgcaaa aaaaaaactt
     2281 ccacccatat gataagtggc gtacagtaaa aaaacgccac caatagcaac gagcaagcga
     2341 aatgtcagat ctgatagctt acaaatcaaa cgcccttatc gaggcaagct acaagctcac
     2401 tttgcaggaa cagcgcttcc tgctggtctg tatcagccgc ctaaaatccg gagaagattc
     2461 cccttcgccg gatgaacaaa aaaccatgac catcacggct gcagagtttc atgatgcctt
     2521 tcctgacatg ggacggcagc acgctgaagc taggctcaag gaagcgatag atcgcctctg
     2581 ggacaggtca gtaatcatca agaacgagga aaaacgagaa gagttccgct gggtgcagta
     2641 ccgggcgcag tatttcaaag gtgaggcgaa agtagatatc accttctccg atgccatcat
     2701 gccgtatctg acacagctca aggggcagtt tacgcgggta gtcgtgaaga acgtctccag
     2761 cctttccagc acctacagca tccgcattta cgagctgctc cagcagttcc gcagcaccgg
     2821 tgacagaacg atagctatcg atgatttccg aaccatgctt gccgttgaag ataaatatca
     2881 acaattcaaa gacttgaata agatgataat caagccagcc atcgccgaac tgaacgaaaa
     2941 aagcgatctg gttgtaactg ttgagacgat caaaaagggg cgcacggttg tagccctgca
     3001 ttttcgcttc aaggaagaca aacagatcaa gatgacgatc taaaatcgat tttaaggcac
     3061 ctaaaacgct ccctgctgcg ttttttttgt gttagtagtg cgaaggtact attgaagtga
     3121 aaaattgcgt caaaaacgct ctgatgcagc gaaaaaagac cccccaattt ttgggggcgg
     3181 aaaaacaaaa ctatgcttgc gttatgtgag tgtgcttctt gcattcatcc ctgtcgatga
     3241 acatcgaaga acatcgacga acataacacg atgttaaaca aaacaaaata ttgttcacat
     3301 tcactgtgac caaccgcgat catgtctcct ctcggtggtg tgtgttcgtg catcttcctc
     3361 gcgctgccat tcctcccagg tacgattaaa acccagcgag cggaacagat gatccggctg
     3421 tttttctggt gtgttgacgg cagcaaaaag cggtgcctca cgggttttca gatgaaactg
     3481 catcagttct ggtgcaggtg atatgtggct gtctgcatcg tgatttacgg caacaccata
     3541 ccctgcatac cgtaacccct tatcggtcag cgcactgatg accagatgcc tgttatcggc
     3601 tgagggaacg gcaaacgcgg gatacagcgt accattaagc cggataacac cgcccagaga
     3661 gtcatccacg cccatgacca gcaaaagctg aagctggcgg gtttcccggt cgacagaact
     3721 catgaccggc atcagcgtcg gtggcagacg tccctgcata aaatccacct tccttgccgc
     3781 tggtgatggc atggctggct ggcggtcttc tccaagacag aaagactccg gccatgtctt
     3841 cggctggcgg agattgcggg tatgttgcgg ccatgtctgg caaacctgcg tcagcagttg
     3901 ctcaaaggtt gcagaggaat aaacacgttg cagtggcgga cgttggccga tttcgcttcg
     3961 gtcacagata taaccactcc tgtcacgcat taaatcaaca ctctcaaaga ttctggtgcg
     4021 gtatttctcc agctcgttcc cccagagcgt atattctccg ttccggttgt gaa
//
