LOCUS       CP122795                4982 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1735 plasmid unnamed3, complete
            sequence.
ACCESSION   CP122795
VERSION     CP122795.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549612
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4982)
  AUTHORS   Vereecke,N., Van Hoorde,S., Sperling,D., Theuns,S., Devriendt,B. and
            Cox,E.
  TITLE     Virotyping and genetic antimicrobial susceptibility testing of
            porcine ETEC/STEC strains and associated plasmid types
  JOURNAL   Front Microbiol 14, 1139312 (2023)
   PUBMED   37143544
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4982)
  AUTHORS   Vereecke,N., Van hoorde,S., Sperling,D., Theuns,S., Devriendt,B. and
            Cox,E.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-APR-2023) Department of Pathobiology, Pharmacology and
            Zoological Medicine, Universiteit Gent, Salisburylaan 133, Merelbeke
            9820, Belgium
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Trycycler; minimap2; medaka v. v0.5.3; v2.20;
            v1.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 162x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:20:41
            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)                     :: 5,000
            CDSs (total)                      :: 4,883
            Genes (coding)                    :: 3,993
            CDSs (with protein)               :: 3,993
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 890
            CDSs (without protein)            :: 890
            Pseudo Genes (ambiguous residues) :: 0 of 890
            Pseudo Genes (frameshifted)       :: 684 of 890
            Pseudo Genes (incomplete)         :: 222 of 890
            Pseudo Genes (internal stop)      :: 61 of 890
            Pseudo Genes (multiple problems)  :: 72 of 890
            Pseudo Genes (short protein)      :: 3 of 890
            CRISPR Arrays                     :: 2
            ##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..4982
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1735"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            1..1176
                     /locus_tag="QDX85_23115"
     CDS             1..1176
                     /locus_tag="QDX85_23115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000893405.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0005525 - GTP binding [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="50S ribosome-binding GTPase"
                     /protein_id="WHG62798.1"
                     /translation="MLEQVKDFLGDSYNPQTGEFNAEKARAEAEEHKDKFNIILCGATG
                     VGKSSLVNAVFGEEIVKSGVGSPVTQHLEKITVPRKGLVLWDTKGIESKDYENTINQLK
                     NDIFHAFNDSSHEYDVPHLGWVCIDSSGARIEERDIEIIGILREKEIPVVVVFTKILGD
                     ESADFIEAAISEINAHHGDFINGRYVKVNSRERKILNISIPVSGLDDLVDISFKALPES
                     KSRARQALKKAQMVKMEERLEAMKDSAKLIVHTSSVAAGVVGATPVPGSDAPLIAGVQS
                     TMIYKINSEFELDITTSASASIISGILGVTAVAQVGKTIVSNVLKFIPGVGSVVGGAIS
                     AATAVGLTEAIGHAYIQVLASYYDKTTGKVLLPESVSVVLDLFKKYFTYKK"
                     /name="50S ribosome-binding GTPase"
     gene            complement(2326..2517)
                     /locus_tag="QDX85_23120"
     CDS             complement(2326..2517)
                     /locus_tag="QDX85_23120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="WHG62799.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLSRFGDDGENM"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2582..2905
                     /locus_tag="QDX85_23125"
     CDS             2582..2905
                     /locus_tag="QDX85_23125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000955993.1"
                     /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="WHG62795.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3114..3545
                     /locus_tag="QDX85_23130"
                     /pseudo=""
     CDS             3114..3545
                     /locus_tag="QDX85_23130"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3583..4101
                     /locus_tag="QDX85_23135"
     CDS             3583..4101
                     /locus_tag="QDX85_23135"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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="WHG62796.1"
                     /translation="MSNLLRTGAEFEKKLKERAESTEKMLNDEFSRLGESVSEAVTSNE
                     TKIKGAIAQFTASTEESLKKHREGVKEAMMQHRKDMLKLAGSSGMRLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRVQEETLRKLNAKTWGVEFVQDGRRKFLVIPQGMSAEVTHYQ
                     GKDWIQLTE"
                     /name="MbeB family mobilization protein"
     gene            4108..4341
                     /locus_tag="QDX85_23140"
     CDS             4108..4341
                     /locus_tag="QDX85_23140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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="WHG62797.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSGQTERLSQLYSENWK"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2169..2248
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="94.0"
                     /evalue="1.83e-34"
     Typing          complement(1596..2140)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.333"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          2550..2899
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.436"
                     /coverage="99.0"
                     /evalue="1.4399999999999999e-68"
     Typing          2896..4439
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.864"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atgttggagc aagttaaaga ttttttaggt gattcctata atccacaaac tggtgagttt
       61 aatgcagaaa aggcaagggc agaggctgag gaacataagg acaaatttaa tataattctt
      121 tgtggagcta caggagttgg taaaagttct ttggttaatg cagtttttgg cgaggagatt
      181 gttaagtcag gagtgggaag tccagttacc cagcatttag aaaaaatcac tgttccaaga
      241 aaagggctgg tgttgtggga tacaaaaggt attgagtcaa aagattatga aaataccata
      301 aatcagttaa agaatgatat ttttcatgca ttcaatgact catctcatga atacgatgtg
      361 cctcatttag ggtgggtttg tattgattcg tcaggtgcaa ggatagaaga aagagatatt
      421 gagataattg gtattttaag agaaaaagaa atacctgtag ttgttgtgtt tacaaaaata
      481 cttggcgatg agtctgccga ttttatagag gcagccatta gtgaaattaa tgctcatcat
      541 ggtgatttta ttaatggtag gtatgtaaag gtaaattcaa gagagcggaa aatacttaat
      601 atttctatcc ctgttagtgg tcttgatgat ttagtagata ttagttttaa ggcgttacca
      661 gaatctaaga gtcgtgccag gcaagcctta aaaaaggctc aaatggttaa aatggaggag
      721 cgacttgagg ccatgaagga tagtgcaaaa ttaattgttc atacatcatc tgtagctgct
      781 ggggtggttg gtgcaactcc tgtgccaggc tctgatgctc cgcttattgc tggagtgcag
      841 agtacaatga tatacaagat taattctgaa ttcgaacttg atataacaac atcagcatca
      901 gcgagtatta ttagtgggat acttggagtt accgcggtag cacaggtggg taagactatt
      961 gtatctaatg ttttaaaatt cattcctggt gtgggttccg ttgttggggg ggcaatatca
     1021 gcagctacag cagttggtct tactgaggct attggtcatg catatattca agttctggct
     1081 agttattatg ataaaacgac tgggaaagtc ctccttccag agagtgttag tgtagttttg
     1141 gatttgttta agaaatactt cacatataaa aagtaattta tgggtgaata tgttttacca
     1201 ctctggtgat aaatatattc ttaatacggc ctccagttat ggatttagtt gatacaactt
     1261 aaacgaagtt atgtgagata gaggattgct tcgtttgtat ttgcatcaag ttggcataga
     1321 tgaaaaggat ctccttgaga tcctttgaaa ggcgtcgtaa tctcttccgc tgtaaacgaa
     1381 aaaaaccgcc tggggaggcg gtttttcgaa ggttaagtca gttggggact gcttaaccgg
     1441 gtaactggct tcagcagagc acagatacca aaactgtcct tccagtgtag ccgtagttag
     1501 gccatcactt caagaactct gtagtactga ttaaacatca atgctctgcg aatccagtta
     1561 ccagtggctg ctgccagtgg cgataagtcg tgtctttccg ggttggactc aagacgatag
     1621 ttaccggata aggcgcagcg gtcgggctga acggggggtt cgtgcacaca gcccagcttg
     1681 gagcgaacga cctacaccga actgagatac caacagcgtg agctatgaga aagcgccacg
     1741 cttcccgaag ggagaaaggc ggacaggtat ccggtaagcg gcagggtcgg aacaggagag
     1801 cgcacgaggg agcttccagg gggaaacgcc tggtatcttt atagtcctgt cgggtttcgc
     1861 cacctctgac ttgagcgtcg atttttatga tgctcgtcag gggggcggag cctatggaaa
     1921 aacgccaacg gcgcagcctt ttccgggttc tcgttttttg ctcacatgtt tcttttggcg
     1981 ttattccctg attctgtgga tcaccgcatc tccgcttttg agtgagcaga caccgctcgc
     2041 cgcagccgaa cgaccgagcg tagcgagtca gtgagcgagg aagcggaaga gcgccggaac
     2101 gtgcattttc tccttacgca tctgtgcggc atttcacacc ggacatggtg cgctttccat
     2161 acaattcgca ctgatgccgc atagttaagc cagtatacac tccgctatcg ctacgtgact
     2221 ggttcagggc ttcgccccga aaccccctga cgcgccctga cgggcttgtc tgctcccggc
     2281 atccgctcac aggcaagctg tgaccgtctc cgggagctac atgtgttaca tgttttcacc
     2341 gtcatccccg aagcgtgaga ggcagctgcg gtaaagctca tcggcgtggt cgtgaagcga
     2401 ttcacatata tctgcctgtt cgtccgcgtc cagctcgttg agtttctcca gaagcgttaa
     2461 tgtctggctt ctgataaagc gggccatgtt aagggcggtt ttttcctgtt tagtcactga
     2521 tgcctctgtg taagggggat ttctgttcat gggggtaatg ataccgatga aacgagagag
     2581 gatgctcacg atacgggtta ctgatgatga acatgcccgg ttactggaac gttgtgaggg
     2641 taaacaactg gcggtatgga tgcggcgggt ctgcctgggt gagccggttg cccgttccgg
     2701 gaagctgcca actttggctc cgccgttact gcgtcagctg gccgccatcg ggaataacct
     2761 gaatcagaca gcgaggaagg tgaacagcgg gcagtggtct tccggcgacc gggttcaggt
     2821 ggtggccgca ctgatggcca tcggggatga gctgcgccgg ctgcgtctgg ccgtcaggga
     2881 acagggggcg cgggatgatt gttaaatttc atgccagggg aaaaggcggt ggcagtggtc
     2941 cggttgatta cctgctggga agggagcgaa accgggaagg cgcaacggtg cttcagggta
     3001 atccggaaga agtccgggag cttattgatg ccacgccatt tgcgaagaaa tacacgtccg
     3061 gtgttctgtc gttcgcagag aaggaactgc cgccgggagg acgtgaaaaa gtgatggaga
     3121 gctttgagcg cgtactgatg cccggtctcg aaaaaaatca gtacagcatc ctgtgggtgg
     3181 agcaccagga caaggggcgg cttgagctta attttgtcat tccgaacatg gagctacaga
     3241 gcggaaaacg cctccagccg tactacgacc gggcagacag gccgagaatt gatgcctggc
     3301 agacactggt gaatcaccat tacggactgc atgaccccaa cgccccggag aaccgcagaa
     3361 cgctgaccct ccctgataac ctgccggaaa cgaaacaggc gcttgctgag agcgttacac
     3421 gaggcctgga ggtgctttac catgccgggg agataaaagg ccgtcaggat gtgattcagg
     3481 cgctcacaga ggcggggctt gaagtggtca gggtgacgcg aagcagtatc agcattgcag
     3541 acccgaacgg cgggaggaat atcagactga aaggagcgtt ttatgagcaa tcttttacgg
     3601 acgggcgcgg agttcgagaa aaagctgaaa gagagagccg aatctacaga gaaaatgctg
     3661 aacgacgaat tcagcaggct cggcgaatct gtaagcgagg ctgtgacctc aaacgagacg
     3721 aaaatcaaag gcgctatagc ccagtttacg gcctcgacgg aggaatcgct gaaaaaacac
     3781 cgggaagggg tgaaagaggc gatgatgcag caccggaagg acatgttaaa gctggcaggg
     3841 agttcgggca tgaggttgct ggggatagtc tttctcctgt ttaccgcgag tggcgggacg
     3901 ctctggtatc tcggcgggag gatacagacg aacctggaag aaatcagggt acaggaagag
     3961 acattgcgga aactgaacgc gaagacatgg ggcgtggagt ttgttcagga cgggagaagg
     4021 aaatttctgg tcattccgca agggatgtca gcagaggtga cgcactatca ggggaaggac
     4081 tggatacaac tgacggagtg atacggaatg acagagctgg aaacacattt gctgaacgcc
     4141 ttagagcagc tgcaacagga ctatatgcag cggctgaacg aatgggagag cgccttcgtg
     4201 gaattgcaga agatgttttc gcttacgcaa cgggacaacg cgatgctgaa cgagcgggtc
     4261 atgcagttga gtcagcaggt gcagcacttg agcgggcaga cagaacgctt gagccagtta
     4321 tacagcgaga actggaaata agggaggaac ggctgataca ggagcgcgaa catgcgttat
     4381 ccctggagcg ggaacgccag ctggaaatac aggaacgcac actggatggt ccttcgttgt
     4441 cgctgtgatg gcgaaactat aaaaaatggc aggttcagtg gattttgacg gactaatgta
     4501 gtctgcacca tctggttgca taggtattca tgcggttaaa atttatcagg cgcgatcgcg
     4561 gcagtttttc gggtggtttg ttgccatttt tacctgtctg ctgccgtgat cgcgctgaac
     4621 gcgtttaagc ggtgcgcata aaatggggtt atgttaaata tgattgatat ctatagatat
     4681 cagactaact atttattttg tacatggtgt taaaattggt aatgattaga atggctatga
     4741 cttataaatg tttatcatgc cattggtgta aaactattcc taaatgtagt gatgctttag
     4801 ttgatggagt gagcgccttt agtcagtgct caaattgcga ttctattttg gttgatgaaa
     4861 aaagagccaa tatcattaac tcggttattg caaatataat attcaaaata aaatcgtaaa
     4921 tgattttatt atttgtgtga tcgtttgcgt ttttgttggc ttgttgttat gtggaggtta
     4981 aa
//
