LOCUS       NZ_CP142942             4073 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Escherichia coli strain B20127 plasmid pB20127_3, complete sequence.
ACCESSION   NZ_CP142942
VERSION     NZ_CP142942.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39500254
            Assembly: GCF_036287685.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  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  JOURNAL   Unpublished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 4073)
  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                   :: 342.0x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 20:07:06
            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)                     :: 4,988
            CDSs (total)                      :: 4,868
            Genes (coding)                    :: 4,610
            CDSs (with protein)               :: 4,610
            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)              :: 258
            CDSs (without protein)            :: 258
            Pseudo Genes (ambiguous residues) :: 0 of 258
            Pseudo Genes (frameshifted)       :: 87 of 258
            Pseudo Genes (incomplete)         :: 163 of 258
            Pseudo Genes (internal stop)      :: 58 of 258
            Pseudo Genes (multiple problems)  :: 49 of 258
            Pseudo Genes (short protein)      :: 4 of 258
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP142942.1.
            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="B20127"
                     /isolation_source="seawater"
                     /db_xref="taxon:562"
                     /plasmid="pB20127_3"
                     /geo_loc_name="Ireland"
                     /collection_date="2020"
     gene            join(2250..4073,1..324)
                     /gene="mobQ"
                     /locus_tag="VYI54_RS24930"
                     /old_locus_tag="VYI54_24930"
     CDS             join(2250..4073,1..324)
                     /gene="mobQ"
                     /locus_tag="VYI54_RS24930"
                     /old_locus_tag="VYI54_24930"
                     /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            complement(582..1283)
                     /locus_tag="VYI54_RS24935"
                     /old_locus_tag="VYI54_24935"
     CDS             complement(582..1283)
                     /locus_tag="VYI54_RS24935"
                     /old_locus_tag="VYI54_24935"
                     /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"
     gene            complement(1817..2071)
                     /gene="mobC"
                     /locus_tag="VYI54_RS24940"
                     /old_locus_tag="VYI54_24940"
     CDS             complement(1817..2071)
                     /gene="mobC"
                     /locus_tag="VYI54_RS24940"
                     /old_locus_tag="VYI54_24940"
                     /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"
     Typing          complement(2073..2249)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2250..2608
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(583..1283)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2164..4073
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.256"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tatcccgcgt ttgccgttcc ctcagccgat aacaggcatc tggtcatcag tgcgctgacc
       61 gataaggggt tacggtatgc agggtatggt gttgccgtaa atcacgatgc agacagccac
      121 atatcacctg caccagaact gatgcagttt catctgaaaa cccgtgaggc accgcttttt
      181 gctgccgtca acacaccaga aaaacagccg gatcatctgt tccgctcgct gggttttaat
      241 cgtacctggg aggaatggca gcgcgaggaa gatgcacgaa cacacaccac cgagaggaga
      301 catgatcgcg gttggtcaca gtgaatgtga acaatatttt gttttgttta acatcgtgtt
      361 atgttcgtcg atgttcttcg atgttcatcg acagggatga atgcaagaag cacactcaca
      421 taacgcaagc atagttttgt ttttccgccc ccaaaaattg gggggtcttt tttcgctgca
      481 tcagagcgtt tttgacgcaa tttttcactt caatagtacc ttcgcactac taacacaaaa
      541 aaaacgcagc agggagcgtt ttaggtgcct taaaatcgat tttagatcgt catcttgatc
      601 tgtttgtctt ccttgaagcg aaaatgcagg gctacaaccg tgcgcccctt tttgatcgtc
      661 tcaacagtta caaccagatc gcttttttcg ttcagttcgg cgatggctgg cttgattatc
      721 atcttattca agtctttgaa ttgttgatat ttatcttcaa cggcaagcat ggttcggaaa
      781 tcatcgatag ctatcgttct gtcaccggtg ctgcggaact gctggagcag ctcgtaaatg
      841 cggatgctgt aggtgctgga aaggctggag acgttcttca cgactacccg cgtaaactgc
      901 cccttgagct gtgtcagata cggcatgatg gcatcggaga aggtgatatc tactttcgcc
      961 tcacctttga aatactgcgc ccggtactgc acccagcgga actcttctcg tttttcctcg
     1021 ttcttgatga ttactgacct gtcccagagg cgatctatcg cttccttgag cctagcttca
     1081 gcgtgctgcc gtcccatgtc aggaaaggca tcatgaaact ctgcagccgt gatggtcatg
     1141 gttttttgtt catccggcga aggggaatct tctccggatt ttaggcggct gatacagacc
     1201 agcaggaagc gctgttcctg caaagtgagc ttgtagcttg cctcgataag ggcgtttgat
     1261 ttgtaagcta tcagatctga catttcgctt gctcgttgct attggtggcg tttttttact
     1321 gtacgccact tatcatatgg gtggaagttt tttttttgca accccctttt tctgtggatt
     1381 acacccccaa aagctccacc tttcaccccc aaaagctcca cctttcaccc ccaaaagctc
     1441 cacctttcac ccccaaaagc tccacttatc ttgccagaac atctttaaaa tcatggtgtt
     1501 acaagaccta aaaaggtttt aaaaaaaaag atctaaaaat aagatcttaa aaacttaacg
     1561 gcgagcctgt ggataacttg gggtgctgaa aacaaaaaac caataaaaac aatgcgttgc
     1621 aataaagcag aattgcaagt ttcgaataca ccccctccaa ccctgtggaa acccagtatt
     1681 catgcgggtt cagcgcatat cacctgccga aaaaccgtgc gtatgtgctc aacctggcga
     1741 ctgattcact tccgcttcct cgcccactcg ctcgctaacg ctcggtcgct ggggctgcgg
     1801 cgagcggacg atacaatcac tgttctggca gcgcctccag ctcgttaatc agcggcagta
     1861 tgcgcgtcac atcagcctgt cgtgtcacct ctgccttcag gaactggagt aaccaggcac
     1921 gcaactgcac ctcctccggc tttctgacct ttgccagcaa tgctgcaccc acaacaacct
     1981 tctgcgctgt gtccaggctc cggctcttcg ccttcaggcg ctgtaatctc gcctcagcat
     2041 cagcaatctt ctgttcgagc gttctgctca tgatgtaact ccgtgcgcga tgaaaaatcg
     2101 cattttagcg cgtcactggt agtttaaaaa ctgagctggc ataatgcacg gcaaatcacg
     2161 aagtgcgcac ttatacaatc tccactccgt ttcgattgtg tgcgccctgc ggggctgaaa
     2221 gaaaactaca aaaaggcatt acggcagaaa tggcgattta tcatctcagc atgaaaatta
     2281 tctccagaag cagcggctac agcgccgtag cttccgctgc ctatcgttcc ggttcactga
     2341 tgcttgatga gcgtaccgga ctgactcacg actacacccg caaaagcggt gtggctgagg
     2401 ctgtgattct gacccccgcc accgcccctg cctggtgtac gaaccgtgcc gaactctgga
     2461 atgccgttga gaaggccgaa cgccggaaga actcacaact tgcgcgggaa attgaactcg
     2521 ccatccccca cgaactgccg caggatgccg cacgggaaac cgttctcgcc tttgtcagag
     2581 aaaactttgt cagtcagggc atgattgctg atgtggcgtt ccatcacatg gataaaacaa
     2641 atccccatgc gcacatcatg ctgaccacga gggctatcgg acctgctggg ttcagcggaa
     2701 aggtcaggga ctggaacgac cggacacatg ccgagacgtg gcgggcatca tgggctgacc
     2761 atgcaaacag ggcactggcg aacgccggtt atcaggaaga gatagaccat cgttcatacg
     2821 agcgacaggg gcttgagaaa acgcctggta ttcacctcgg aaagtctgcc tgtgcgatgg
     2881 aaacacgcgg tatcgaaaca gaacgcggcg aacagaatcg tctgattaac aggcttaacc
     2941 tggaaataca gatttcccgc accgaactca ggaacggagg gctgacagag cctgcccgcc
     3001 gtgtggctga ccttctgaat atcgggcttc ctgacaacgc aacttcgtac acactacgtg
     3061 acattatcga agcgttgccg aaggacagta actcggcatg gaaactcacc agtaatgcca
     3121 tgtcgatgat ggcagatatg caggcgacgc gcagacgctg ggaagagctg aacaccgaac
     3181 gaaaggaagc gatgagccat gctgccagcc tgaaaaaatc atcgccgttt tcgtccggtt
     3241 tttcccgtat tcccctgatg caatgggcgg caccggaata ccgtagtgag cagggaaaaa
     3301 tccagtctct gagccagcaa atggaaaaat tacgacagca ttaccggaag gtggagaaac
     3361 aggacattcc cgcgagtcag atggcatttg aaaaacagtg gcagcagtgg ggggaatccg
     3421 gccttgcagc tctcagagcc cagttgctta aacgtgaaga ggaattgcgc cggaaggaac
     3481 aggaagatac tgaacgtagt cgcgcggagc agctcaggaa aaatgacaat gccgttatgg
     3541 attcaggggt gctgagagca gtcgttacgg ggtatggcga ggctcccatg cctggtaacg
     3601 gggaaatgac ctgttacctt ctgcttcaca accggaacgg agaatatacg ctctggggga
     3661 acgagctgga gaaataccgc accagaatct ttgagagtgt tgatttaatg cgtgacagga
     3721 gtggttatat ctgtgaccga agcgaaatcg gccaacgtcc gccactgcaa cgtgtttatt
     3781 cctctgcaac ctttgagcaa ctgctgacgc aggtttgcca gacatggccg caacataccc
     3841 gcaatctccg ccagccgaag acatggccgg agtctttctg tcttggagaa gaccgccagc
     3901 cagccatgcc atcaccagcg gcaaggaagg tggattttat gcagggacgt ctgccaccga
     3961 cgctgatgcc ggtcatgagt tctgtcgacc gggaaacccg ccagcttcag cttttgctgg
     4021 tcatgggcgt ggatgactct ctgggcggtg ttatccggct taatggtacg ctg
//
