LOCUS       NZ_CP142937             3965 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Escherichia coli strain B20123 plasmid pB20123_7, complete sequence.
ACCESSION   NZ_CP142937
VERSION     NZ_CP142937.1
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 3965)
  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  JOURNAL   Unpublished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 3965)
  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
            CP142937.1.
            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..3965
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="B20123"
                     /isolation_source="seawater"
                     /db_xref="taxon:562"
                     /plasmid="pB20123_7"
                     /geo_loc_name="Ireland"
                     /collection_date="2020"
     gene            complement(240..1154)
                     /locus_tag="VYI63_RS27015"
                     /old_locus_tag="VYI63_27015"
     CDS             complement(240..1154)
                     /locus_tag="VYI63_RS27015"
                     /old_locus_tag="VYI63_27015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001448734.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Abi family protein"
                     /protein_id="WP_065810798.1"
                     /translation="MPNTIHYPHVIPFISQGKINAIKSTFGNNLSDRECYGIYIWSQKA
                     SSAIYPLLQQLEVTLRNSIDKEATKLIGQKWWDNVYTDTSKSKHDDFIHNINKAKKRYE
                     NEFKKKNPSMANTKIIAPHDDIIAHTDFYTWQAVLSDAFHTQSRSEVSRALWPRLTYRV
                     LKGLDRSKDEGTARIDFLNELNEIRNYRNRLSHNDCIWIKIHSKNLQSAVETIREKINK
                     IEGLIKTINPQVHLSLTKWGSFYHAKRICSQKEAELHLGKGIINSTTDEMNTILDQLYA
                     LTADGKLTGVVKRNTNNIAFHKF"
                     /name="Abi family protein"
     gene            complement(1380..1493)
                     /locus_tag="VYI63_RS27020"
                     /old_locus_tag="VYI63_27020"
     CDS             complement(1380..1493)
                     /locus_tag="VYI63_RS27020"
                     /old_locus_tag="VYI63_27020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_244749245.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPARHDLSPLAAATGN"
                     /name="replication initiation protein"
     gene            1604..1852
                     /locus_tag="VYI63_RS27025"
                     /old_locus_tag="VYI63_27025"
     CDS             1604..1852
                     /locus_tag="VYI63_RS27025"
                     /old_locus_tag="VYI63_27025"
                     /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_074422399.1"
                     /translation="MAGSEQESARGSFQGETPGIFIVLSGFATSDLSVDFCDARQGGGA
                     YGKTPAALASSGVLLFAHMFFPALSPDSVDNRITAFE"
                     /name="hypothetical protein"
     gene            complement(1989..2183)
                     /locus_tag="VYI63_RS27030"
                     /old_locus_tag="VYI63_27030"
     CDS             complement(1989..2183)
                     /locus_tag="VYI63_RS27030"
                     /old_locus_tag="VYI63_27030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041623.1"
                     /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_044788462.1"
                     /translation="MNKQQQTALNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQKSIQTRFESESGTRE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2467..2790
                     /gene="mobA"
                     /locus_tag="VYI63_RS27035"
                     /old_locus_tag="VYI63_27035"
     CDS             2467..2790
                     /gene="mobA"
                     /locus_tag="VYI63_RS27035"
                     /old_locus_tag="VYI63_27035"
                     /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_001390775.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEIMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(3018..3611)
                     /locus_tag="VYI63_RS27040"
                     /old_locus_tag="VYI63_27040"
     CDS             complement(3018..3611)
                     /locus_tag="VYI63_RS27040"
                     /old_locus_tag="VYI63_27040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012537770.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WP_065810797.1"
                     /translation="MSGRKFGRLPNWWARSSWLVNNVRSNEIGVGIASMKCLLALSVLI
                     DFHSRTASVSFTGMERLTGLSRPMIVKGVAKLEKDGLIKIDREMFVNSYELTVQPNDDR
                     WAKVPVDTIRKKLNTISNRGMAPFVALKLYLTIISLRYQSNNTVKVTHETLRSYTGVQP
                     NQIRFGLDVLYCSRLIHLQPKEDRESNIYEIIGL"
                     /name="replication protein"
     Typing          2221..2458
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.49"
                     /coverage="99.0"
                     /evalue="9.98e-112"
     Typing          complement(1422..1947)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.35"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          2468..2787
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="3.68e-62"
ORIGIN
        1 ggtctattgg taaatggtgg atggtaggct ttagcgtgaa catgggaaat agtttgctct
       61 ttttcctgat gatgatgtat catgtatggc agtgaagcct tgagctttcg ctttaatgca
      121 ttgtgaaatt tttatagatt cacaatgaca ttaaggccac gctccaccga aaggtgataa
      181 tggcaagaga tttggatgag gctcgacagg aaactgtcgg gccttttcta ttttgtgatc
      241 taaaacttgt gaaatgcgat attgttggta tttcgtttta caacacccgt tagcttccca
      301 tcagcagtta gtgcgtatag ttgatctaga attgtgttca tctcatctgt tgtgctattg
      361 attattcctt tgcctagatg caattcggcc tctttttgag aacatattct tttggcgtga
      421 taaaaggaac cccacttcgt taatgataga tgtacctgtg ggtttatcgt ttttatcagt
      481 ccttctattt tgtttatttt ttctcttatt gtttctactg cagattgcaa atttttagag
      541 tgtattttta tccatatgca atcattatgc gataacctat ttctgtagtt tctgatctca
      601 ttcagctcgt ttaagaaatc aattctggct gtgccttcat ctttgcttct atctaatccc
      661 ttcagtactc tgtaggtgag cctgggccat aaggctcttg atacttcaga tcttgattgt
      721 gtatgaaaag catcgctcaa aaccgcttgc catgtgtaaa aatctgtgtg tgcaatgatg
      781 tcatcatgag gtgcaattat tttggtattt gccattgatg gatttttttt cttgaattca
      841 ttctcatatc ttttttttgc tttgtttata ttatgtatga agtcatcgtg tttgcttttt
      901 gatgtgtcgg tgtatacatt atcccaccat ttttggccta ttagttttgt cgcttcttta
      961 tcaattgagt ttctcaaagt aacttcgagt tgttgcaata atggatatat ggcagatgag
     1021 gctttctggc tccatatata tatcccgtag cactccctat cagacaggtt attaccaaac
     1081 gtgcttttta tagcatttat ttttccttgg gatataaatg gtattacatg agggtaatga
     1141 attgtatttg gcatatccat ctctatcata cacttagtgg tgattggatg ttgccataca
     1201 cgtatggata gttgtagagt gttaaacgaa aaaaccgcct tggcgggcgg tttttcgaag
     1261 gttcaaagag ttggcgctct gtgaaccaag gtaactggct tggaggagcg cagtcaccaa
     1321 aatctgttct ttcagtttag ccttaacagg tgcataactt caagacaaac tcctctaaat
     1381 cagttaccag tggctgctgc cagtggcgat aagtcgtgtc ttgccgggtt ggactcaaga
     1441 cgatagttac cggataaggc gcagcggtcg ggctgaacgg ggggttcgtg cacacagccc
     1501 agcttggagc gaacgaccta caccaagccg agataccaac agcgtgagct atgagaaagc
     1561 gccacgcttc ccgaagggag aaaggcggac aggtatccgg taagtggcag ggtcggaaca
     1621 ggagagcgca cgagggagct tccaggggga aacgcctggt atctttatag tcctgtcggg
     1681 tttcgccacc tctgacttga gcgtcgattt ttgtgatgct cgtcaggggg gcggagccta
     1741 tggaaaaacg cctgcggcgc tggcttcttc cggtgttttg ctttttgctc acatgttctt
     1801 tccggcttta tcccctgatt ctgtggataa ccgtattacc gcctttgagt gaactgacac
     1861 cgctcgccgc agccgaacga ccgagcgtag cgagtcagtg agcgaggaag cggaagagcg
     1921 ccttatgtgg cattttctcc ttacgcaccg gtataccgtt ctgcatcctg tctggtgtag
     1981 gaacactgtt attccctggt gccactttcc gattcaaagc gtgtctgtat gcttttctga
     2041 agttcttccg cgagttcgtg cagcttctca cacatggcgg cctgttcgtc agcatcaagt
     2101 gcgtccagtt tttcgagcag cgtcaggctc tggcttttta tgaatcctgc catgttgagt
     2161 gcggtttgct gctgcttgtt catctttctg ttttctccgt tctgtctgtt atctgcctcg
     2221 tgtgattata tcgcgtacca cttttcgact gttttgccgc cggtattctg ctgtctgact
     2281 cgttgacggg tatttctgcc tgacaatact gtcactgcca agaaactgcc gtgcctttgt
     2341 cggtaattcg aacttgctga caggacagga tgtgtaattg ttataccgcg catacatgca
     2401 cgctattaca attaccctgg tcagggctct gccccgacac ccatgtcaga tacggagcca
     2461 tgttttatga caaaacgaag tggaagtaat acgcgcaggc gggctatcag tcgccctgtt
     2521 cgtctgacgg cagaagaaga ccaggaaatc agaaaaaggg ctgctgaatg cggcaagacc
     2581 gtttccggtt ttttacgggc ggcagctctc ggtaagaaag ttaactcact gactgatgat
     2641 cgggtactga aagaaattat gagactgggg gcgttacaga aaaaactctt tatcgacggc
     2701 aagcgtgtcg gggacaggga atatgcggag gtgctgatcg ctattacgga gtatcaccgt
     2761 gccctgttat ccaggcttat ggcagattag cttcccgggg agaaaactgt cgaaaacaga
     2821 cggtatgaac gccgtaagcc cccaaaccga tcgccattca ctttcatgca tagctatgca
     2881 gtgagctgaa agcgatcctg acgcattttt ccggtttacc ccggggaaaa catctctttt
     2941 tgcggtgtct gcgtcagaat cgcgttcagc gcgttttggc ggtgcgcgta atgcgacgtt
     3001 atggtaaatg catttcctca taggccgatt atttcataga tgtttgactc tctatcttct
     3061 tttggttgca gatgtatcag gcgactacag tacagtacat ctaagccgaa tctaatctgg
     3121 tttggctgga cacctgtata gcttctcagt gtttcatgtg tcaccttaac agtattattt
     3181 gactgataac gaaggcttat aattgttaaa tatagtttta atgccacaaa tggggccatc
     3241 cccctgttcg atatggtgtt tagttttttc ctgatagtat ctactggtac ttttgcccac
     3301 ctatcatcat ttggctgtac tgttaattca taggagttaa caaacatctc tctatctatc
     3361 tttataagac catctttctc aagtttggct actcctttca ctatcatggg gcggcttagt
     3421 ccagtcagtc tttccattcc ggtaaatgat actgaggctg ttcttgaatg gaaatcaatc
     3481 aagacggata gagctaacaa gcatttcatt gatgcaatgc cgacccctat ctcatttgaa
     3541 cgaacattgt ttacaagcca tgagcttcgg gcccaccagt ttggaagcct gccaaatttt
     3601 ctaccgctca tttttacccc attttcggtc aaggagagat ataaatagct ttattatcat
     3661 atacatgaaa accattgcac ctaaagatac aacagaaacc aaaacctccg gctttgcgga
     3721 agttagcgtt accagcaaat tgttgagggt ttccaattgg tcctccagtc gcatactaag
     3781 ttgttgtgtt ttaactttat atacgcttat tagaataaat ctagataaag caatatttgg
     3841 tgactgtttg ttttttcata taaaacatag tgttatcttg tttttctcgt tttttaactg
     3901 gtaaatgtaa atttgataat gctggtttaa tcggcgtttt tagttatttt tgttgtgtgt
     3961 ttttt
//
