LOCUS       NZ_CP086508             4773 bp    DNA     circular CON 28-MAY-2024
DEFINITION  Escherichia coli strain Ec-050-T5-MAC plasmid pEc-050-T5-MAC_8,
            complete sequence.
ACCESSION   NZ_CP086508
VERSION     NZ_CP086508.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22108722
            Assembly: GCF_022759725.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4773)
  AUTHORS   Moser,A.I., Endimiani,A., Campos-Madueno,E.I. and Vallone,A.
  TITLE     Genome plasticity in E. coli and K. pneumoniae: SNV accumulation
            over time
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4773)
  AUTHORS   Moser,A.I., Endimiani,A., Campos-Madueno,E.I. and Vallone,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-NOV-2021) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 275x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022759725.1-RS_2024_05_28
            Annotation Date                   :: 05/28/2024 05:24:20
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,280
            CDSs (total)                      :: 5,158
            Genes (coding)                    :: 4,888
            CDSs (with protein)               :: 4,888
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 270
            CDSs (without protein)            :: 270
            Pseudo Genes (ambiguous residues) :: 0 of 270
            Pseudo Genes (frameshifted)       :: 108 of 270
            Pseudo Genes (incomplete)         :: 174 of 270
            Pseudo Genes (internal stop)      :: 53 of 270
            Pseudo Genes (multiple problems)  :: 57 of 270
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP086508.1.
            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..4773
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Ec-050-T5-MAC"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEc-050-T5-MAC_8"
                     /geo_loc_name="Switzerland"
                     /collection_date="2018"
                     /collected_by="Institute for Infectious Diseases Bern"
     gene            complement(209..676)
                     /locus_tag="LNN49_RS26185"
                     /old_locus_tag="LNN49_26190"
     CDS             complement(209..676)
                     /locus_tag="LNN49_RS26185"
                     /old_locus_tag="LNN49_26190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_157186121.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYTTVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     gene            1212..1763
                     /locus_tag="LNN49_RS26190"
                     /old_locus_tag="LNN49_26195"
     CDS             1212..1763
                     /locus_tag="LNN49_RS26190"
                     /old_locus_tag="LNN49_26195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000654246.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(1962..2177)
                     /locus_tag="LNN49_RS26195"
                     /old_locus_tag="LNN49_26200"
     CDS             complement(1962..2177)
                     /locus_tag="LNN49_RS26195"
                     /old_locus_tag="LNN49_26200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137420.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2181..2666)
                     /locus_tag="LNN49_RS26200"
                     /old_locus_tag="LNN49_26205"
     CDS             complement(2181..2666)
                     /locus_tag="LNN49_RS26200"
                     /old_locus_tag="LNN49_26205"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_079967943.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<2701..3405)
                     /locus_tag="LNN49_RS26495"
                     /old_locus_tag="LNN49_26210"
                     /pseudo=""
     CDS             complement(<2701..3405)
                     /locus_tag="LNN49_RS26495"
                     /old_locus_tag="LNN49_26210"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(3344..3667)
                     /locus_tag="LNN49_RS26210"
                     /old_locus_tag="LNN49_26215"
     CDS             complement(3344..3667)
                     /locus_tag="LNN49_RS26210"
                     /old_locus_tag="LNN49_26215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000957080.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4305..4388
                     /locus_tag="LNN49_RS26500"
     CDS             4305..4388
                     /locus_tag="LNN49_RS26500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_058652899.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPDRHD"
                     /name="hypothetical protein"
     Typing          complement(3769..3956)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.864"
                     /coverage="87.0"
                     /evalue="5.83e-49"
     Typing          3902..4414
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.829"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1859..3354)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.385"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aatctacatc acgatgttta tgattattgt actgcaagag cattcgcagg gggcatcaac
       61 cagtaatagg ccttctgtgc cgggcagtca gatggctggt catctgccgg gtagttacga
      121 caagcgtcgg tttctgaacc ctatgtgcta aggaaatgct gcgactacca acgaattcat
      181 aaagggcgct ttttagcgcc ctattttttt attcaatatg accaaccaaa gtaccgtgcg
      241 ccgtccttcg tgtgtacgca gtcacaacga catagatcca acctgactca gtttcaggcg
      301 cttctctggg ctcaagaatt acgatgccta ccgacgactt tagcactgca ggccgatgtt
      361 taccgcttgt actgttgaac tcgcaatata ttggtacgcc acgacgaata atatcccgga
      421 caaaacgagc cacatcatta acggtcgtat atcccagctt aaccagttcc tgctcgtgct
      481 cagcccagat atggcgaaca ccaaagcccc ggttagggcc agtatgccta ccaacacgca
      541 agaagatgtc gccagcagga ataacatcac ctttagaatt aatttcaggg acacggccat
      601 agcaatcaag cccatcaggg tgagctatag cgctgttagg tgaaccagct acaccgtaat
      661 tgtttggagc aggcacaaaa cgatccttat tgagtagagt ccgcatatgg taccagagag
      721 gaaacaagcg gaaggagccc aagaaaaaag cagagacgat aaaaagaatc cttatggatt
      781 atttttttgt cctttcatcc ttggcgcata aggatatcac acctgaaaat gtgacgtgcg
      841 aatcgcccta gcagctagat ttaccataac atcccttgcc cgcaccgctc cggacgggtt
      901 cagcgtgaaa gcggcgttag cccggtaaaa ccggcagtaa actccccgct aaaccgcgca
      961 ttctgcgcct gataaatttc acgcggctgc atagccatgc agccacgtga atggctcatg
     1021 ctttcaatgt atatcctcgt ccaagcccct gttttaaccg gtttatcaaa aaaacaaaca
     1081 ggaagcctta tcactaacaa taaaagaggt agggggctgc attttatcgc ataaaaaaca
     1141 tttacaacac gaattctatc gtatagattt cataaaaaaa tgaaattgac tcacctatta
     1201 agggtttcta tatgaaagat atgaaagctg ttgtggtttt taccgggaag gatttgaaca
     1261 taatgagaac cgaggggggg tcaggctact ggcatgccag aacagacagg ctcaacgatg
     1321 ccgattacct catagcagta agaaacagaa gggaaacgtg ggcagtaaaa gacctggaac
     1381 acggcacagc attcctgatc gccaaaatta ccgggtgttt taaaagccct gattacgacg
     1441 acaggaacgt cataaccttt gatgaatacg cagaaattca cactccaaaa gcatggaaaa
     1501 tgctaaccga tggtcagcgc tatccggttg cttacctgag cgcacaggaa gcttttttac
     1561 gtattggggt aacaccggaa caactggaat ggaagaaatt ccatccttca tccccatcgg
     1621 ttcctaatac agtgattcct ggtctggctg aagagaaaac agaaaaactc tcccttaacg
     1681 aggcaattga aagagccaaa aaggatatta gcaacgcaac agggattgat agctcagcca
     1741 taacaataag catcaagatc tgatgaagcg tgaacaacaa gatagcagcc tcatgttcta
     1801 gaactgaacc tgtgcgccag aaacagcaag cccatgcttt tccggcgcac agattcaaag
     1861 tgacggaccg ttgtacgttc gctgtcgctg agatcgttcc agctccagcg ctttctgatg
     1921 ctgcgccgcc cgttcctgct cacgatgtgc ctctatcacg ttcagccttg tgacaaccgg
     1981 cgcagctgct cgctcaaact ctgcacctgc ctgctcaagc ccgtgacgcg ctcgctcagc
     2041 gccgcgttct cccgttgcat aagaccaaac atcgtccgcc attccgcgaa ggcgttctcc
     2101 cactcgtcca gccttttcga gtagtcctgc tgtagctgct ctaatgcgct cagcaactgt
     2161 ttttccagct ccgtcatgtg ctatttcccc gccagtatca tccagctcga atcctctccg
     2221 aaccgtcccg cttccgggtt caccctcacg cagcgccgtc tctgctctcc gcaggtcgag
     2281 agctgcacgc cgctgttcct ctcggacagc atggcctgcg tgctcttctg ctcccggatg
     2341 atcgtgtaat tgtcgagtat ctgctgcccc tgccaccata gaatgcttgc gcccgatgct
     2401 gtcagcagtg tagacaccag gacgatggtc agccacgtct ggctgaccat acgcaccatg
     2461 cctttcgtgc gctggctcat ggctgaggac agcttccggt cgtggtcgag gatggcggcg
     2521 ctgattctct tctcgctttc gctcagttcc gctctgacaa acttctcgtg ctcgctgaat
     2581 gcgactttca gcatctcgcc ggtactctgc tgctgcgctt tcgatttctg ctctaagtcc
     2641 ttcgccagcg ttaaaagact gttcatagat ggctcccttc agtcggatgt ttcgcccccc
     2701 gtccgggtcg gcaatgctga tgctgctttt tgtggtgcgc accacctcaa aacctgcgct
     2761 ttctagcgcc tcagtgacgt cctggcgggt tttcagctcc ccggacgagg ctaaggccag
     2821 taaaccccgt gtaattgcct gagcggcttc ctgcttcgtt ttcggcagcg cggacggcgt
     2881 gaccagcgcc cgccggtttt caggcgcgtt cgggtcatgc agccccagcc tgccgttcac
     2941 gatggtctgc caggcatcaa tgcgcggacg gtcggcgcgg tcgtaatacg gctggagacg
     3001 cctgcctgtc agcagctcca tgttcgggat caggaagttc agctccagcc gccccttatc
     3061 ctggtgctca acccatagca cgctgtactg gtctttatcg agtccgggca tcagaacccg
     3121 ttcaaagctc gccatcagct tttcgcgctg cccgggcggt aaatcctttt cggcaaagga
     3181 caggacgccg gatgtgtact tttttgcgta gggcgaggcg tcgataagct ccctgacttc
     3241 ttccggcttc ccctgcagaa cggtggcgcc gtcgcgctgt cggtctttcc ccagcagata
     3301 atccaccgga ccggcgccac cgccgcgccc tcgcgggtga aacttaacga tcatcgtctg
     3361 cacccttttc cagcacggca tgccgcagcc gctcgagtcc ggcatctatg gccatcagcg
     3421 cggcgacgac ctgcacgcgg tcgtgcccgc tgccgccacc ggcgttaacc tgccgggcaa
     3481 tctggttgag gttattcccc atgccggcaa gctgacgaag cagcgccggc gagattgagg
     3541 gaagcttgcc ggcgcgggcg ggtttctcgg ccaggcacgt ctggcgcatc caggctgcaa
     3601 gctgtttacc gtcgcagcgt tccagcagac ggcggtgctc atcttcggtc acccacatgg
     3661 tgagcatctt gttccgtttc tctgacaaac cgatctcctg ataacgccgg gacgggcggg
     3721 aaatcttttc ccggtcggcg cggtgttgga caagccgcag gcgcgtcagt ggttttagca
     3781 ggtttcgggg cgcagccctg aaccagtcac gtagcgctag cggagtgtat actggctcaa
     3841 tatgttacgg cggagtaaca cgtaatgaaa gtgcttcatg tggcagggga aaaatgcagc
     3901 tgcagggcgt acaggagaaa atggaggtta cggtgatatg acgcctcctc gctcactcgg
     3961 tcgcttccgc tcctgacgtt cggctgcggc gggcgttacc tgcaaacgga taagagcaaa
     4021 ggcatacggc atggcaagca ggacaggaaa aggatgcggc gctgccgttt ttccataggc
     4081 tccgcccccc tgacaagcat cacgaaatct gacgctcaaa tcagtggtgg cgaaacccga
     4141 caggacttaa agataccagg cgtttccccc tggtggctcc ctcgtgcgct ctcctgttcc
     4201 tgcctttcgg tttaccggtg tcattccgct gttatggccg cgtttatctc attccacgcc
     4261 tgacactcag ttccgggtag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg
     4321 ttcagtccga ccgctgcgcc ttgtccggta actatcgtct tgagtccaac ccggatagac
     4381 acgactaatc gccattggca acggccactg gtaagcagga tgtgcgagag atgtaacgag
     4441 agttcttgaa gtggcggcct aactgaggct acactgaaag gacagtattt ggtgacatgt
     4501 ctcgcacaag actgttacca cggttagaga atctgccagg attaactaac cttcgaaaaa
     4561 accacctgcc agggtggttt tttcgtttct gagcaagaga ctacgacgag ccactgatga
     4621 tctcaagtgt tcatttctga tattcacagc agaataactg ttaggatata gggtatctat
     4681 agccaggagc ttcaagaaat ccagacacag caatggattc cagggttatc gaaaaaaatt
     4741 agtatatagg ttgcaaccaa aatgttggtt gca
//
