LOCUS       NZ_CP063514             3764 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain EH08-18-36 plasmid pEH08-18-36_3, complete
            sequence.
ACCESSION   NZ_CP063514
VERSION     NZ_CP063514.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16387494
            Assembly: GCF_016944735.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3764)
  AUTHORS   Moser,A.I., Campos-Madueno,E.I. and Endimiani,A.
  TITLE     Complete genome and plasmid sequences of MDR Escherichia coli from
            local people and environmental sources in Laos
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3764)
  AUTHORS   Moser,A.I., Campos-Madueno,E.I. and Endimiani,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-OCT-2020) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.7.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 805x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 06:19:58
            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)                     :: 4,916
            CDSs (total)                      :: 4,792
            Genes (coding)                    :: 4,576
            CDSs (with protein)               :: 4,576
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 216
            CDSs (without protein)            :: 216
            Pseudo Genes (ambiguous residues) :: 0 of 216
            Pseudo Genes (frameshifted)       :: 66 of 216
            Pseudo Genes (incomplete)         :: 138 of 216
            Pseudo Genes (internal stop)      :: 46 of 216
            Pseudo Genes (multiple problems)  :: 35 of 216
            Pseudo Genes (short protein)      :: 4 of 216
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP063514.1.
            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..3764
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EH08-18-36"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEH08-18-36_3"
                     /geo_loc_name="Laos"
                     /collection_date="2018"
                     /collected_by="Institute for Infectious Diseases Bern"
     gene            join(3596..3764,1..203)
                     /locus_tag="IQS18_RS24630"
     CDS             join(3596..3764,1..203)
                     /locus_tag="IQS18_RS24630"
                     /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="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_251325764.1"
                     /translation="MEKRDNMLRVRFSDAEFEALKQLAEDAGCTMSELVRDHLGRVSVR
                     NKDVDRERIAMQLVRDHLGRVSVRNKDVDRERIAMLNRINANLNMIARWVNTHKSAASS
                     VEVVAHLMDIERHIRELSQ"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(290..700)
                     /locus_tag="IQS18_RS24635"
     CDS             complement(290..700)
                     /locus_tag="IQS18_RS24635"
                     /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_049595770.1"
                     /translation="MIRLSDLTCAPWVIRVSQAIPGVNFTAQVIESLFCGISGRADVQA
                     FPGAKLNAGRHKMQLVMSGMGMPDPEDVVLIGFKPGERDLFKAIHEILLHFWRDLLLRG
                     ERQHARSVFVPEIERVNEVAGSLRGSPQDFRR"
                     /name="hypothetical protein"
     gene            936..1442
                     /locus_tag="IQS18_RS24265"
                     /old_locus_tag="IQS18_24275"
     CDS             936..1442
                     /locus_tag="IQS18_RS24265"
                     /old_locus_tag="IQS18_24275"
                     /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_049595771.1"
                     /translation="MSVSLTLQERLKQQHLAESETIQSLTKQQLSSLRSELNGIFQQEL
                     NTMLEDMRRQLHDTKEDMRQSRQSMLLTVVKNRVIFPALSAVTILAVIFLSGWGLSTFQ
                     ESQITANWQQINSQKATLAALESKTAGLNIVQDKNGTFVVLPKGAKVDDSGWTVGKQQA
                     LRIVR"
                     /name="hypothetical protein"
     gene            1446..1679
                     /locus_tag="IQS18_RS24270"
                     /old_locus_tag="IQS18_24280"
     CDS             1446..1679
                     /locus_tag="IQS18_RS24270"
                     /old_locus_tag="IQS18_24280"
                     /inference="COORDINATES: protein motif:HMM:NF016769.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD/MobD family mobilization/exclusion protein"
                     /protein_id="WP_049595772.1"
                     /translation="MTELETHLLNALKRMEQQFSEQLKASEKAQAALQSMFERTAEDNA
                     TLLKQVSFLDNRVTVLSEQLKQFGNLYRQNRR"
                     /name="MbeD/MobD family mobilization/exclusion protein"
     gene            complement(1907..2341)
                     /locus_tag="IQS18_RS24275"
                     /old_locus_tag="IQS18_24285"
     CDS             complement(1907..2341)
                     /locus_tag="IQS18_RS24275"
                     /old_locus_tag="IQS18_24285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004193480.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_049595767.1"
                     /translation="MSKRITQIDTATGEEVGSFVAVIRPKQKSAFERHFTMNQDALKIL
                     AKTLTGEQFKVLMMLLADLDYENYIQIAQADIAEALGMQKTNVSRSVKALIDLSVILQG
                     PKVGRSYSYRLNPQFGWKGTVRNHKKALTNGLSVIQGGRS"
                     /name="helix-turn-helix domain-containing protein"
     gene            2675..3325
                     /locus_tag="IQS18_RS24280"
                     /old_locus_tag="IQS18_24290"
     CDS             2675..3325
                     /locus_tag="IQS18_RS24280"
                     /old_locus_tag="IQS18_24290"
                     /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="VRR-NUC domain-containing protein"
                     /protein_id="WP_049595768.1"
                     /translation="MKLLDRQCEQLGIALFDICFPYSGKPELALLSKYRNDGFLGASCE
                     GGAILTLIKSCMLDGLARYNSFGDRDDAVNRYLEAQMTILSDKKEELIDIISHVPENTI
                     FDNYDEIISSPFIQSIYPTLSRELGMAMFYAIGREKISEIAAAFSADPYQYRSGWPDLT
                     LVYENCIEFVEVKTTDNLHKTQLTTIPMILQILPGTVSVCRLKNRTAAEIVKQ"
                     /name="VRR-NUC domain-containing protein"
     Typing          201..1774
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.571"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agctggttcg cgatcatctc ggcagggtca gcgtgcgaaa caaagacgtc gatcgggaac
       61 ggattgccat gcttaaccgc atcaatgcca acctgaacat gattgcccgc tgggttaata
      121 cgcataaatc ggcggcttcc tcggttgagg tcgttgctca cctgatggat atcgagcgcc
      181 atattcggga gctgtcgcaa tgattgtggg tttcagcagg cacggcactg gcggtggcag
      241 tgggccggtc ggctatgtca ccgataaaac gcggcccggt cgggaagatt caccgccgga
      301 agtcctgagg ggatccccgg aggctacccg caacctcatt gactcgctcg atttccggca
      361 caaatacact tctggcgtgc tgtctttcgc cccggaggag aaggtcacgc cagaaatgga
      421 gcagtatttc atggatcgct ttgaacaggt cgcgttcgcc gggcttgaag ccgatcagta
      481 caacatcctc tgggtcaggc atacccatgc cggacatcac gagctgcatt ttgtgacgcc
      541 ccgcgttgag cttagcaccg ggaaaagcct gaacatccgc ccgcccggag atgccgcaaa
      601 acaggctttc gatgacctgc gcagtgaaat taacgccagg tatggcctgg ctgacccgga
      661 tgacccacgg cgcgcacgtg agatcgctca gcctgatcat gagctgaaaa tcgccgcaga
      721 agccctcaga aggggcgaga agccgcagga agacgtcagg ctactcatag acgcggtttt
      781 gtctcagagg gccgcacagg ggcttatacg cagtcgtagc gacgttatcg agcaggtttc
      841 agaccttgga atgcaggtaa cgcgcgaagg taaaaattac atcaccgtgt cagatccgca
      901 gagcggccag cggtggcgca tgaaaggggg actttatgag cgtgagtttg acgctgcagg
      961 agcgattgaa gcagcagcat ctcgcagaga gcgagactat tcaaagcctg acgaagcagc
     1021 agctgagcag tttgcgaagc gagttgaacg gcatatttca gcaagagctg aataccatgc
     1081 tggaagatat gcgccggcag ctgcacgaca cgaaagagga tatgcgccag agccggcaga
     1141 gcatgttgct gaccgtcgtg aaaaaccggg tgatattccc ggccctgagc gcggttacga
     1201 tcttggccgt tatctttctg agcggctggg gcctgagtac gtttcaggaa agccagatca
     1261 cggccaactg gcagcagatc aacagccaga aagccacgct ggcggcgctg gagagcaaaa
     1321 cagcgggcct gaacatcgtt caggacaaga acgggacgtt cgtcgtgctg cccaaagggg
     1381 cgaaagtgga cgacagcggc tggacagtcg ggaagcagca agctctgcgg atcgtgaggt
     1441 aaaccatgac ggaactggaa acgcacttat tgaacgcctt gaagcgtatg gagcagcaat
     1501 tcagcgagca gctgaaagct tccgagaagg cgcaggccgc cttgcagagc atgttcgagc
     1561 gtactgcgga agacaacgcc acgctgttga agcaagtcag cttcttagac aatcgggtga
     1621 ctgtattgtc ggagcagctg aagcagttcg ggaacctcta caggcagaac aggcgttgag
     1681 gaagcagctg gaatttcagg aagcgttgca gcagaaacag cgtgaaccgg agcctccggc
     1741 gccgaagcca aacaggtatt acgggccaag catgtagaga tggcgggtaa aaaaaaaccg
     1801 cgcttggcgg ggaaaatacg ttacagagat attcctctgt aacgtattgg acaacataat
     1861 aatattttag ttcaaagagc ccatagttac gtttcaaggt aactattcag ctacgtccgc
     1921 cctgaatcac gctcaggcca tttgtcaggg cctttttgtg gttccttaca gtgcctttcc
     1981 atccaaactg aggattcagg cggtaactat aactgcgccc tactttaggg ccctgaagga
     2041 tcacagacag gtcgatgaga gctttcactg aacggctcac attggttttc tgcatgccta
     2101 aagcttcggc aatatcagct tgggcaattt gaatgtaatt ttcataatcg agatcagcta
     2161 acagcatcat caagactttg aattgctccc ctgtaagggt tttagcaagg atctttaacg
     2221 cgtcttggtt catagtgaaa tgcctctcaa aagctgactt ctgtttgggt cggataactg
     2281 cgacaaaact acctacctct tcccctgtag cagtgtctat ctgagtaatt cttttactca
     2341 tttaagaggc tctcccaaaa aatagttatc aataatgata acaacgttat caataatgat
     2401 aactatcgtc aagcgagaac cgcgccacac aagggctgag agaatccctc cttctgtatc
     2461 ttatagcgag aggcttagat ggtcgggtag accccctgtt ttcatcgaat agtgcataag
     2521 catttctatg cccgttcagg tgatattccg cttcctcgtt ccgactgttc gttcctcgct
     2581 acgctgcggt acgcctcagc cggaacttgc ggtgagcggt tactgtaatt aaatcgttga
     2641 tgtatctgat ggctttttta actggagaga ccaaatgaaa cttctggata ggcagtgtga
     2701 gcagcttgga atagctttgt ttgatatatg ttttccctac tctggaaagc cagaattggc
     2761 tctgctttca aaatatagaa atgatggttt tttaggggcc tcttgcgaag gtggagcaat
     2821 cttaactctt ataaaatcat gcatgttaga cggcttagcc agatacaact cctttggtga
     2881 tcgggatgac gcagtaaatc gctatttaga agcacagatg acaattttat ctgataaaaa
     2941 agaagagctt atagacataa ttagtcatgt tcctgaaaat acgatttttg ataattacga
     3001 tgaaataatt tctagccctt tcatacaaag catttatccc actctctcca gagaactagg
     3061 catggcaatg ttctatgcca ttggccgtga aaaaatatca gaaatagctg ctgcattttc
     3121 tgcagaccct taccaatatc gtagtggatg gccagatctc actttagtct atgaaaattg
     3181 tattgagttt gtagaagtaa agactactga taatcttcat aaaacccagt taacaaccat
     3241 cccaatgatt ctacaaattc tcccaggtac ggtttctgtt tgccgtctaa aaaatcgtac
     3301 tgccgctgaa atcgtcaaac agtaaatcgt gggggcccct ttggggttcc gatttactgt
     3361 ttgatgacac ccccatagat atccttacca gaggtggatg gtttcacgaa gtgaggccat
     3421 ccacctgata gacgccgttg ccctgggcga gggagcaaag cgaccgctgc aagggagggg
     3481 tcaaggggag gcgaagtctc ccattgcaag gcccggtgtg cgacattgag cgtagcgaaa
     3541 tgtagcaaca tcgggtagcc ttgtttaaag tgcaatatgc gacgatggag gtggaatgga
     3601 aaagcgcgat aacatgctgc gggtcaggtt ttctgacgcg gaatttgagg cgctgaagca
     3661 gctggccgaa gatgcaggct gcaccatgtc cgagctggtt cgcgatcatc tcggcagggt
     3721 cagcgtgcga aacaaagacg tcgatcggga acggattgcc atgc
//
