LOCUS       CP098973                4664 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB46-C19 plasmid unnamed2, complete
            sequence.
ACCESSION   CP098973
VERSION     CP098973.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488714
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4664)
  AUTHORS   Matlock,W.
  TITLE     Plasmid overlap and evolution between Enterobacterales isolates from
            bloodstream infections and non-human compartments
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4664)
  AUTHORS   Matlock,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2022) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Assembly Name                     :: RHB46-C19
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 172x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:17:21
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,747
            CDSs (total)                      :: 4,635
            Genes (coding)                    :: 4,386
            CDSs (with protein)               :: 4,386
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 249
            CDSs (without protein)            :: 249
            Pseudo Genes (ambiguous residues) :: 0 of 249
            Pseudo Genes (frameshifted)       :: 51 of 249
            Pseudo Genes (incomplete)         :: 187 of 249
            Pseudo Genes (internal stop)      :: 43 of 249
            Pseudo Genes (multiple problems)  :: 29 of 249
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..4664
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB46-C19"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3717..4664,1..195))
                     /gene="wzz(fepE)"
                     /locus_tag="NFL50_23690"
     CDS             complement(join(3717..4664,1..195))
                     /gene="wzz(fepE)"
                     /locus_tag="NFL50_23690"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+. GO_component:
                     GO:0016020 - membrane [Evidence IEA]; GO_process:
                     GO:0009103 - lipopolysaccharide biosynthetic process
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WGB86590.1"
                     /translation="MSAMDFKKNTDLDFPRYATPAVSTKEIDLLGLLDVLLAAKKRIVT
                     IVLAFAVVGLAIAFLIPQKWTSKAVITPAEQTQWNTLRQMMVTLQVLDVDAKVSRGDVF
                     NLFIKKFQSQSLLEEYMKTSPYVMSQLEGTEVDPLELHRAVVNIAEKMKATDNTQVKDA
                     DKAPYTSWTLSFTAPTAGDAQTVLEGYINYISRIVEQETMENIRNQITLKTKVVQQQLE
                     LDRVRLTNIHNTNLQRLNYSLEVANAAGIKKPVYSNGQAVKDDPDYSVALGADGIAQKL
                     QIEKNLKDVAELNADFQNREYYLTQLQKLSVEDVKLEPFRYQLSPSLPVKKDGPGKALI
                     VLLAGILGGLFACGSVLLREAMLSRNPLPEPITAVTPATE"
                     /name="wzz(fepE)"
     gene            390..1371
                     /locus_tag="NFL50_23695"
     CDS             join(390..1181,1183..1371)
                     /locus_tag="NFL50_23695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_048909999.1"
                     /ribosomal_slippage=""
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology. GO_function: GO:0004803 - transposase
                     activity [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="IS5 family transposase"
                     /protein_id="WGB86591.1"
                     /translation="MSHQLTFADSEFSSKRRQTRKEIFLSRMEQILPWQNMVEVIEPFY
                     PKAGNGRRPYPLETMLRIHCMQHWYNLSDGAIEDALYEIASMRLFARLSLDSALPDRTT
                     IMNFRHLLEQHQLARQLFKTINRWLAEAGVMMTQGTLVDATIIEAPSSTKNKEQQRDPE
                     MHQTKKGNQWHFGMKAHIGVDAKSGLTHSLVTTAANEHDLNQLGNLLHGEEQFVSADAG
                     YQGAPQREELAEVDVDWLIAERPGKVRTLKQHPRKNKTAHQHEYMKASIRAKVEHPFRI
                     IKRQFGFVKARYKGLLKNDNQLAMLFTLANLFRADQMIRQWERSH"
                     /name="IS5 family transposase"
     gene            complement(1520..1651)
                     /locus_tag="NFL50_23700"
                     /pseudo=""
     CDS             complement(1520..1651)
                     /locus_tag="NFL50_23700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013578013.1"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="zinc-ribbon domain-containing protein"
                     /name="zinc-ribbon domain-containing protein"
     gene            complement(3258..3440)
                     /locus_tag="NFL50_23705"
                     /pseudo=""
     CDS             complement(3258..3440)
                     /locus_tag="NFL50_23705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007798797.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="NINE protein"
                     /name="NINE protein"
     gene            3437..3679
                     /locus_tag="NFL50_23710"
                     /pseudo=""
     CDS             3437..3679
                     /locus_tag="NFL50_23710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003862821.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="cupin domain-containing protein"
                     /name="cupin domain-containing protein"
     Typing          complement(1956..2341)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.116"
                     /coverage="90.0"
                     /evalue="4.83e-172"
ORIGIN
        1 ccatttttgc gggattaaaa acgcaatggc caaccctact acggcgaacg ccaggacgat
       61 cgtcacaata cgttttttgg ctgccagaag tacgtctaac aaccccagga gatctatctc
      121 tttggtgctt accgccggag tggcataacg gggaaaatcg aggtccgtgt ttttcttgaa
      181 atccatcgct gacataaccg ttcttctttt tggagcgcag taaatttctg cctgattggt
      241 tgcagtggtc ggatgataca agaaagtaag aataatctta acgccagatt gatctatctg
      301 tagaccgact atcagattta gggaaggtgc gaacaagtcc ctgatatgag atcatgtttg
      361 tcatctggag ccatggaaca gggttcatca tgagtcatca acttaccttc gccgacagtg
      421 aattcagcag taagcgccgt cagaccagaa aagagatttt cttgtcccgc atggagcaga
      481 ttctgccatg gcaaaacatg gtggaagtca tcgagccgtt ttaccccaag gctggtaatg
      541 gccggcgacc ttatccgctg gaaaccatgc tacgcattca ctgcatgcag cattggtaca
      601 acctgagcga tggcgcgatc gaagatgctc tgtacgaaat cgcctccatg cgtctgtttg
      661 cccggttatc cctggatagc gccttgccgg accgcaccac catcatgaat ttccgccacc
      721 tgctggagca gcatcaactg gcccgccaat tgttcaagac catcaatcgc tggctggccg
      781 aagcaggcgt catgatgact caaggcacct tggtcgatgc caccatcatt gaggcaccca
      841 gctcgaccaa gaacaaagag cagcaacgcg atccggagat gcatcagact aagaaaggca
      901 atcagtggca ctttggcatg aaggcccaca ttggtgtcga tgccaagagt ggcctgaccc
      961 acagcctagt caccaccgcg gccaacgagc atgacctcaa tcagctgggt aatctgctgc
     1021 atggagagga gcaatttgtc tcagccgatg ccggctacca aggggcgcca cagcgcgagg
     1081 agctggccga ggtggatgtg gactggctga tcgccgagcg ccccggcaag gtaagaacct
     1141 tgaaacagca tccacgcaag aacaaaacgg cccatcaaca tcgaatacat gaaagccagc
     1201 atccgggcca aggtggagca cccatttcgc atcatcaagc gacagttcgg cttcgtgaaa
     1261 gccagataca aggggttgct gaaaaacgat aaccaactgg cgatgttatt cacgctggcc
     1321 aacctgtttc gggcggacca aatgatacgt cagtgggaga gatctcacta aaaactggga
     1381 ataacgcctt aaatggcgaa gaaacggtct aaataggctg attcaaggca tttacgggag
     1441 aaaaaaatcg gctcaaacat gaagaaatga aatgactgag tcaaccgaga agaatttccc
     1501 cgcttattcg caccttccct aatagcgcgg ctgcgattct acttttttca cctgaacctg
     1561 aagaggcgtt tgtggctccg cagtgtgggc atgactttgc tgtttcgtgt atttccttgc
     1621 cgcatcctcg gcagtaaacc attgaactca ttttttatcc tcgagcttat ttttagttgg
     1681 gatgcataat atccgatgtt ttataacgat atgcatccta tatgctcggg tgggatagat
     1741 ttccattatg gtgaaggatc ttcttgagat cctttctgta gcgtcgtaat ctcttgctca
     1801 gtaaacgaaa aaaccgccca gcaaggcggt ttttcgaagg ttctcagagc tgcaactctt
     1861 tgaaccgtgg taactggctt atgaggagcg cagtaaccaa atctgttctt tcagtttagc
     1921 cttaacaggc gcataacttc aagactaact cctctaaatc agttaccagt ggctgctgcc
     1981 agtggcgctt tgtcgtgtct ttccggcttg gactcaagtc gatagttacc ggagaagacg
     2041 cagcggtcgg actgaacggg ggggtcgtgc atacagtcca gcttggagcg aactgcctac
     2101 ccggaactga gtgtcaggcg tggaatgaga taaacgcggc cataacagcg gaatgacacc
     2161 ggtaaaccga aaggcaggaa caggagagcg cacgagggag ccaccagggg gaaacgcctg
     2221 gtatctttaa gtcctgtcgg gtttcgccac cactgatttg agcgtcagat tctgtgatgc
     2281 ttgtcagggg ggcggagcct atggaaaacc ggcaacgccg cggccttttc ttttgcctct
     2341 cgatcctctc tcattgcctg tgccttaatg tctccgttcc ctccgctcgc cgcagccgaa
     2401 cgaccgagcg tagcgagtca gtgagcgagg aagcggaata tccccggact tatcttcggc
     2461 accgtacgcg ccagtgctgc attttttaat acgatgcagg atagggctaa cgccgcaaag
     2521 tgacgtcacc tgacgttcct ggattacaaa ggttaaagca gcggacagga aatgttttgt
     2581 gcccacagct atgctggctt attcacaaaa cagcgggaca agatgtgttt ttggagtacc
     2641 gccggcccgc taaagactcc tggttagctc ccgcatgttt gctatctttt tgctaccatt
     2701 ttgctacttt tttgctatct ccagagtctt ctggtctttc ggttgctatc cttttgctac
     2761 ttttttgcta tcaaaatgct acctctccct tcttgcaata aatgaccaag gcacgttagc
     2821 gatgtataca tcgccgcgcc gcaagggtgc cccttccgaa tcccgttcat cactgcgtgc
     2881 tgattcatcc acgttaaatc cgaccccctt agcaataaat ccagccatgc ctgacggcct
     2941 ggccaacgcc tcacggccgc acagtaaact gcacacccgt gaggcgttat tcgtgaggtt
     3001 cagtggtgct tttgggcgtc cagccggatt ttagcggcta aaatcccggc catgcatgtg
     3061 tgtgcatagc catgcagacg cgccagaatc atcaggcgcg ttttttcacg atataggcac
     3121 agggaagtgt cggaaacagg caggaagacc cagaaacgcc ctgagagcct ctcaggcggt
     3181 gcacgcaacg gatgttatgg taaatctgcc tcacagactg gtacaaaaaa agccccgcag
     3241 ggcttttttg ctatgagtta gccatatttt cttgcgaatt tttcatcgga atcgcataga
     3301 taaataataa actcaataaa cgcgatgatc gcgggtatga atgtccagca aaaaattaga
     3361 tacaggaatc cctgtcctat tttacctaag taaaatttat gtacgccaaa tccaccaagg
     3421 aagaatgcta agaaagatga tggcggtgga ggtcaatttt gagcagggtg cgattggccc
     3481 gatgcacaat cacccgcatg aacagcttac ctatgtgctc tccggggagt tcgagtttac
     3541 gataggtgaa gaaaagcaga tcgtgacggc gggcgatacg ctctataaag cgccgcacgt
     3601 gatgcacggc tgcatttgcc tgaagcccgg cacccttctg gataccttta cgccggtgcg
     3661 cgacgatttc ctgaaataaa aaaaggcgct gaatcagcgc ctttttaata tcgtcgttac
     3721 tctgttgctg gcgttacggc cgttatcggc tctggcaacg gattacgcga gagcattgcc
     3781 tcacgcagca gcacgctgcc gcaggcaaac aggccgccca gaatccctgc cagcagcaca
     3841 atcagggctt tgcccggacc gtcttttttc accggcagtg acggtgaaag ctgatacctg
     3901 aagggttcaa gcttcacgtc ttccacggac agtttttgca actgagtcag atagtattca
     3961 cggttctgga aatccgcatt cagctcggcc acgtccttca gattcttttc aatctgcagc
     4021 ttttgcgcaa taccgtcagc acccagcgcc acggagtagt caggatcgtc ttttaccgcc
     4081 tgtccgttgc tgtaaaccgg cttcttaatg cctgccgcgt tcgccacttc cagcgaatag
     4141 ttgaggcgct gcaggttggt gttgtggata ttggtcagac gcacgcgatc cagctccagc
     4201 tgctgctgaa cgactttcgt tttcagcgtg atctggttac ggatattttc catcgtctcc
     4261 tgctcaacaa tgcgggagat atagttgatg taaccttcca gaaccgtctg cgcgtctccc
     4321 gccgtcgggg cggtaaagct cagcgtccat gaggtatacg gcgctttgtc tgcgtcttta
     4381 acctgcgtgt tatctgtcgc tttcattttc tcagcaatat tcaccaccgc gcgatgcagc
     4441 tccagcgggt ctacctcggt gccttccagc tgagacatca cgtacgggga ggttttcatg
     4501 tactcttcga gcagcgactg cgactgaaac tttttgatga acaggttaaa cacgtctcca
     4561 cggctcacct tcgcgtcgac gtccagcacc tgcagcgtca ccatcatctg gcgcagcgtg
     4621 ttccactgcg tctgctcggc cggcgtgatc acggctttac tggt
//
