LOCUS       NZ_CP100508             2313 bp    DNA     circular CON 22-JUL-2023
DEFINITION  Escherichia coli strain LH50-c plasmid pLH50-c-H, complete sequence.
ACCESSION   NZ_CP100508
VERSION     NZ_CP100508.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29499317
            Assembly: GCF_024223415.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2313)
  AUTHORS   Biggel,M.
  TITLE     ESBL-producing Enterobacteriaceae from poultry
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2313)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JUL-2022) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/22/2023 02:51:37
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,935
            CDSs (total)                      :: 5,818
            Genes (coding)                    :: 5,517
            CDSs (with protein)               :: 5,517
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 301
            CDSs (without protein)            :: 301
            Pseudo Genes (ambiguous residues) :: 1 of 301
            Pseudo Genes (frameshifted)       :: 131 of 301
            Pseudo Genes (incomplete)         :: 169 of 301
            Pseudo Genes (internal stop)      :: 69 of 301
            Pseudo Genes (multiple problems)  :: 59 of 301
            Pseudo Genes (short protein)      :: 4 of 301
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100508.1.
            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..2313
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LH50-c"
                     /isolation_source="pooled poultry feces"
                     /host="Gallus gallus domesticus"
                     /db_xref="taxon:562"
                     /plasmid="pLH50-c-H"
                     /geo_loc_name="Switzerland"
                     /collection_date="2022"
                     /collected_by="Institute for Food Safety and Hygiene,
                     University of Zurich"
     gene            637..1134
                     /locus_tag="NLZ13_RS29560"
                     /old_locus_tag="NLZ13_29565"
     CDS             637..1134
                     /locus_tag="NLZ13_RS29560"
                     /old_locus_tag="NLZ13_29565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001027759.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_023156898.1"
                     /translation="MNITERTDSKKKVLRQNITEVIDRETGNVTQEITDITVQFPQEPA
                     YVKIYIDNLCAVTKAPDSLKDVLFLILRKLDYDGYIALSTRYRKEICKLLGIKDGTLRN
                     RLYSLSKMGIIASCGGNEYQANPNLFARGEWKKIIEQRREFEMRIKYSPNGETIITTEE
                     IK"
                     /name="replication/maintenance protein RepL"
     gene            complement(1168..1593)
                     /gene="mobA"
                     /locus_tag="NLZ13_RS29565"
                     /old_locus_tag="NLZ13_29570"
     CDS             complement(1168..1593)
                     /gene="mobA"
                     /locus_tag="NLZ13_RS29565"
                     /old_locus_tag="NLZ13_29570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001107325.1"
                     /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_024257935.1"
                     /translation="MAKNKRSGSEVRQRTKVITLRVNNRLASEIRRRAKNEGLTISEYI
                     RTASLNNEIKQRVPSRYLYELIRLGRMQKKLFDKGKRPKDKEYLEVMHKIILLCDEMKI
                     VTKRISDIYNEMDLIKDEIKIIKRLHKNKYPGSDLFK"
                     /name="mobA"
ORIGIN
        1 acatcgacgg tctatgacca cccaccaacc gagtagctgc ccatcccgtg caaatgggct
       61 ttgcaggggg ctggcgcggt tcctggcgac ctgaaagccc ctagttaggg gtatcggcgc
      121 gcctggcctc ctgaaaccct ctgtaagcgt ttttcgcgcc ttccatgccc tgacgggcat
      181 ttagaccccg tttcgtgcgt ctgggaggct ctgagcgcgt ttaacagatg accagcgact
      241 cgatcgcctg agatcaaatc gggatcatca acgatatgcg agaggtggca ccgctcgccg
      301 cagccccagc gaccgagccg ccaggctcgc gagtgggcga ggaagcggaa gagaaccgga
      361 agctacattg agcacgcacg ctcaatatta aaattgtcac ttcgtaaata gagattatgc
      421 ctcgtgcttg tggatacatt taaaaatata agatatccga attaggctac atacgggctg
      481 atcgccaatg ttgtaacgtg tagaagatac acctgtaacg tgtacaggat acacctgtaa
      541 cgtgtgggcg gtattcgcgt aatctatatt gagtgacatt ttgttttttg ggcattatat
      601 tgtttgtcac ctttataaag tgacaaaggc gataaaatga acattactga aagaacggat
      661 agcaagaaaa aagttttaag acaaaatatt actgaggtta tagatagaga aactggaaac
      721 gtaacacaag aaataaccga tataacagtt caatttccac aagaacctgc gtatgtgaaa
      781 atttatattg ataatttatg tgctgtcaca aaagcacctg attctctaaa agatgtttta
      841 tttttaattc ttaggaaatt ggattatgac ggatatattg cattatcaac tagataccgt
      901 aaggagatct gtaaattatt gggaataaaa gacggaacat tacgtaacag attgtattca
      961 ttatcaaaaa tggggattat tgctagttgt ggcggtaatg aatatcaggc aaaccctaat
     1021 ttatttgctc gtggtgaatg gaaaaaaata attgaacagc gtcgcgagtt tgaaatgaga
     1081 attaaatatt cacctaacgg tgaaactatt ataacaaccg aagaaataaa ataatgcgca
     1141 cctaaataag gtctttttaa aaagacctta tttgaataaa tccgaacctg gatatttatt
     1201 tttatgtagc ctttttatta tttttatttc atcctttatt aaatccattt cattatatat
     1261 atcagaaatt cgcttcgtta ctattttcat ttcatcgcaa agtaaaatta ttttatgcat
     1321 cacctcgagg tactctttat ccttcggccg ctttccctta tcaaataatt ttttctgcat
     1381 ccgaccaagt cggattaatt catataaata cctggaaggt acgcgctgtt ttatttcatt
     1441 atttaaactt gccgtcctga tatattctga aattgtcagt ccttcgttct tcgctcgccg
     1501 tctgatttcg cttgcaagtc tgttatttac tctaagggtg ataaccttag ttctctgccg
     1561 tacttctgaa ccactacgtt tatttttagc catcgcaatg actctccatt ttgcacgttt
     1621 ggggtgtcgg ggcttgccct gacaggaggt attctcatgc aagcgaatgt attcgcggta
     1681 tgacgaatac acatcctatc ccattttccg ctgcaacttt tcaacgaaaa taaaataccg
     1741 cgtcgtaacc tagtatttct gatacaaaaa aatgatgctt cattcaatat tatttataca
     1801 gattttaaaa attattgatt gttatttaat aaataacacc gaattaattg atgtctttgt
     1861 tgtctgtcgt ttgtagatta ttagaggaat aaagattaga tcttcttggt tatataatcc
     1921 attgcctgtt ggtaatgcgg gattcgtcca gagagcagga ggcaaaagag caagatggta
     1981 gcatatgcat aaaatataac tatgtgagtt attgatatcg cgtttatata ttaaaaatat
     2041 aacttaacgt cgctcctaat ctttatttca tcctggcaat gggagcatta atccccgtgc
     2101 agtgctccgc cagctgctga caacctcgac atataaccat cgatacgata gaacatcagg
     2161 gcgcgtttcc ggcaagaact aaccatgggg atggtttgcg tgccaacgaa cgccggaaac
     2221 gcgcttcaaa cctaccgagt cgccacggtt ccggcagcgc cttgagcgca accggaaacc
     2281 gtctggggag aaccccagac ccccaccgct gca
//
