LOCUS       NZ_CP142936             4063 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Escherichia coli strain B20123 plasmid pB20123_6, complete sequence.
ACCESSION   NZ_CP142936
VERSION     NZ_CP142936.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39500237
            Assembly: GCF_036287665.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4063)
  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  JOURNAL   Unpublished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 4063)
  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                   :: 307.0x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 19:50:48
            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)                     :: 5,409
            CDSs (total)                      :: 5,286
            Genes (coding)                    :: 5,021
            CDSs (with protein)               :: 5,021
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 265
            CDSs (without protein)            :: 265
            Pseudo Genes (ambiguous residues) :: 0 of 265
            Pseudo Genes (frameshifted)       :: 92 of 265
            Pseudo Genes (incomplete)         :: 184 of 265
            Pseudo Genes (internal stop)      :: 54 of 265
            Pseudo Genes (multiple problems)  :: 60 of 265
            Pseudo Genes (short protein)      :: 4 of 265
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP142936.1.
            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..4063
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="B20123"
                     /isolation_source="seawater"
                     /db_xref="taxon:562"
                     /plasmid="pB20123_6"
                     /geo_loc_name="Ireland"
                     /collection_date="2020"
     gene            join(4025..4063,1..663)
                     /locus_tag="VYI63_RS27000"
                     /old_locus_tag="VYI63_27000"
     CDS             join(4025..4063,1..663)
                     /locus_tag="VYI63_RS27000"
                     /old_locus_tag="VYI63_27000"
                     /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(911..3058)
                     /gene="mobQ"
                     /locus_tag="VYI63_RS27005"
                     /old_locus_tag="VYI63_27005"
     CDS             complement(911..3058)
                     /gene="mobQ"
                     /locus_tag="VYI63_RS27005"
                     /old_locus_tag="VYI63_27005"
                     /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            3237..3491
                     /gene="mobC"
                     /locus_tag="VYI63_RS27010"
                     /old_locus_tag="VYI63_27010"
     CDS             3237..3491
                     /gene="mobC"
                     /locus_tag="VYI63_RS27010"
                     /old_locus_tag="VYI63_27010"
                     /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(2701..3059)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3060..3236
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2..663
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(915..3145)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.989"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gaggcaagct acaagctcac tttgcaggaa cagcgcttcc tgctggtctg tatcagccgc
       61 ctaaaatccg gagaagattc cccttcgccg gatgaacaaa aaaccatgac catcacggct
      121 gcagagtttc atgatgcctt tcctgacatg ggacggcagc acgctgaagc taggctcaag
      181 gaagcgatag atcgcctctg ggacaggtca gtaatcatca agaacgagga aaaacgagaa
      241 gagttccgct gggtgcagta ccgggcgcag tatttcaaag gtgaggcgaa agtagatatc
      301 accttctccg atgccatcat gccgtatctg acacagctca aggggcagtt tacgcgggta
      361 gtcgtgaaga acgtctccag cctttccagc acctacagca tccgcattta cgagctgctc
      421 cagcagttcc gcagcaccgg tgacagaacg atagctatcg atgatttccg aaccatgctt
      481 gccgttgaag ataaatatca acaattcaaa gacttgaata agatgataat caagccagcc
      541 atcgccgaac tgaacgaaaa aagcgatctg gttgtaactg ttgagacgat caaaaagggg
      601 cgcacggttg tagccctgca ttttcgcttc aaggaagaca aacagatcaa gatgacgatc
      661 taaaatcgat tttaaggcac ctaaaacgct ccctgctgcg ttttttttgt gttagtagtg
      721 cgaaggtact attgaagtga aaaattgcgt caaaaacgct ctgatgcagc gaaaaaagac
      781 cccccaattt ttgggggcgg aaaaacaaaa ctatgcttgc gttatgtgag tgtgcttctt
      841 gcattcatcc ctgtcgatga acatcgacga acataacacg atgttaaaca aaacaaaata
      901 ttgttcacat tcactgtgac caaccgcgat catgtctcct ctcggtggtg tgtgttcgtg
      961 catcttcctc gcgctgccat tcctcccagg tacgattaaa acccagcgag cggaacagat
     1021 gatccggctg tttttctggt gtgttgacgg cagcaaaaag cggtgcctca cgggttttca
     1081 gatgaaactg catcagttct ggtgcaggtg atatgtggct gtctgcatcg tgatttacgg
     1141 caacaccata ccctgcatac cgtaacccct tatcggtcag cgcactgatg accagatgcc
     1201 tgttatcggc tgagggaacg gcaaacgcgg gatacagcgt accattaagc cggataacac
     1261 cgcccagaga gtcatccacg cccatgacca gcaaaagctg aagctggcgg gtttcccggt
     1321 cgacagaact catgaccggc atcagcgtcg gtggcagacg tccctgcata aaatccacct
     1381 tccttgccgc tggtgatggc atggctggct ggcggtcttc tccaagacag aaagactccg
     1441 gccatgtctt cggctggcgg agattgcggg tatgttgcgg ccatgtctgg caaacctgcg
     1501 tcagcagttg ctcaaaggtt gcagaggaat aaacacgttg cagtggcgga cgttggccga
     1561 tttcgcttcg gtcacagata taaccactcc tgtcacgcat taaatcaaca ctctcaaaga
     1621 ttctggtgcg gtatttctcc agctcgttcc cccagagcgt atattctccg ttccggttgt
     1681 gaagcagaag gtaacaggtc atttccccgt taccaggcat gggagcctcg ccataccccg
     1741 taacgactgc tctcagcacc cctgaatcca taacggcatt gtcatttttc ctgagctgct
     1801 ccgcgcgact acgttcagta tcttcctgtt ccttccggcg caattcctct tcacgtttaa
     1861 gcaactgggc tctgagagct gcaaggccgg attcccccca ctgctgccac tgtttttcaa
     1921 atgccatctg actcgcggga atgtcctgtt tctccacctt ccggtaatgc tgtcgtaatt
     1981 tttccatttg ctggctcaga gactggattt ttccctgctc actacggtat tccggtgccg
     2041 cccattgcat caggggaata cgggaaaaac cggacgaaaa cggcgatgat tttttcaggc
     2101 tggcagcatg gctcatcgct tcctttcgtt cggtgttcag ctcttcccag cgtctgcgcg
     2161 tcgcctgcat atctgccatc atcgacatgg cattactggt gagtttccat gccgagttac
     2221 tgtccttcgg caacgcttcg ataatgtcac gtagtgtgta cgaagttgcg ttgtcaggaa
     2281 gcccgatatt cagaaggtca gccacacggc gggcaggctc tgtcagccct ccgttcctga
     2341 gttcggtgcg ggaaatctgt atttccaggt taagcctgtt aatcagacga ttctgttcgc
     2401 cgcgttctgt ttcgataccg cgtgtttcca tcgcacaggc agactttccg aggtgaatac
     2461 caggcgtttt ctcaagcccc tgtcgctcgt atgaacgatg gtctatctct tcctgataac
     2521 cggcgttcgc cagtgccctg tttgcatggt cagcccatga tgcccgccac gtctcggcat
     2581 gtgtccggtc gttccagtcc ctgacctttc cgctgaaccc agcaggtccg atagccctcg
     2641 tggtcagcat gatgtgcgca tggggatttg ttttatccat gtgatggaac gccacatcag
     2701 caatcatgcc ctgactgaca aagttttctc tgacaaaggc gagaacggtt tcccgtgcgg
     2761 catcctgcgg cagttcgtgg gggatggcga gttcaatttc ccgcgcaagt tgtgagttct
     2821 tccggcgttc ggccttctca acggcattcc agagttcggc acggttcgta caccaggcag
     2881 gggcggtggc gggggtcaga atcacagcct cagccacacc gcttttgcgg gtgtagtcgt
     2941 gagtcagtcc ggtacgctca tcaagcatca gtgaaccgga acgataggca gcggaagcta
     3001 cggcgctgta gccgctgctt ctggagataa ttttcatgct gagatgataa atcgccattt
     3061 ctgccgtaat gcctttttgt agttttcttt cagccccgca gggcgcacac aatcgaaacg
     3121 gagtggagat tgtataagtg cgcacttcgt gatttgccgt gcattatgcc agctcagttt
     3181 ttaaactacc agtgacgcgc taaaatgcga tttttcatcg cgcacggagt tacatcatga
     3241 gcagaacgct cgaacagaag attgctgatg ctgaggcgag attacagcgc ctgaaggcga
     3301 agagccggag cctggacaca gcgcagaagg ttgttgtggg tgctgcattg ctggcaaagg
     3361 tcagaaagcc ggaggaggtg cagttgcgtg cctggttact ccagttcctg aaggcagagg
     3421 tgacacgaca ggctgatgtg acgcgcatac tgccgctgat taacgagctg gaggcgctgc
     3481 cagaacagtg attgtatcgt ccgctcgccg cagccccagc gaccgagcgt tagcgagcga
     3541 gtgggcgagg aagcggaagt gaatcagtcg ccaggttgag cacatacgca cggtttttcg
     3601 gcaggtgata tgcgctgaac ccgcatgaat actgggtttc cacagggttg gagggggtgt
     3661 attcgaaact tgcaattctg ctttattgca acgcattgtt tttattggtt ttttgttttc
     3721 agcaccccaa gttatccaca ggctcgccgt taagttttta agatcttatt tttagatctt
     3781 tttttttaaa acctttttag gtcttgtaac accatgattt taaagatgtt ctggcaagat
     3841 aagtggagct tttgggggtg aaaggtggag cttttggggg tgaaaggtgg agcttttggg
     3901 ggtgaaaggt ggagcttttg ggggtgtaat ccacagaaaa agggggttgc aaaaaaaaaa
     3961 cttccaccca tatgataagt ggcgtacagt aaaaaaacgc caccaatagc aacgagcaag
     4021 cgaaatgtca gatctgatag cttacaaatc aaacgccctt atc
//
