LOCUS       CP122894                5651 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1715 plasmid unnamed8, complete
            sequence.
ACCESSION   CP122894
VERSION     CP122894.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549594
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5651)
  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 5651)
  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                   :: 237x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:15:12
            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)                     :: 5,046
            CDSs (total)                      :: 4,930
            Genes (coding)                    :: 3,820
            CDSs (with protein)               :: 3,820
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 1,110
            CDSs (without protein)            :: 1,110
            Pseudo Genes (ambiguous residues) :: 0 of 1,110
            Pseudo Genes (frameshifted)       :: 892 of 1,110
            Pseudo Genes (incomplete)         :: 243 of 1,110
            Pseudo Genes (internal stop)      :: 57 of 1,110
            Pseudo Genes (multiple problems)  :: 78 of 1,110
            Pseudo Genes (short protein)      :: 3 of 1,110
            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..5651
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1715"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed8"
                     /geo_loc_name="Belgium"
                     /collection_date="2020"
                     /collected_by="IMM_DI04"
     gene            1..1011
                     /locus_tag="QDX13_25200"
     CDS             1..1011
                     /locus_tag="QDX13_25200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000395670.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHF95332.1"
                     /translation="MEFQELENSACLYWPKELAERAASISAISPLIETQDEFLSILTIS
                     TNKPTSCFDAVRLCNKISPNLFVKHLMVLSDIGGERLHRFFKDLDKIYPDRIMEFNIGN
                     SSYSYQFNSNRAWTTKNLNVEKSRLLQPVSDFTREMLDVCMLILWGGNTINNTNLPTEI
                     ENNCVLGNLIGNKEAIEQFVKERYIMVSRQTGGATANDLGHICEIFIKEKLYKLIDNNI
                     SLDGHHIDGVTHNDKDLTTFDIVAKNTTTKKCVGIEISFQVTTNSTIERKAGLAKSRRD
                     LLNSRGHKIAYVIDGSGNFQRSNAIKTIINHSDMTVNFSDNGINSLATFICETLK"
                     /name="hypothetical protein"
     gene            1008..2255
                     /locus_tag="QDX13_25205"
     CDS             1008..2255
                     /locus_tag="QDX13_25205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001522448.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WHF95333.1"
                     /translation="MIKFVDLFSGTGGIRLGFEQAMKEIGLSTKCVKSSEIDKKACETY
                     KLNFDEESYCDIHDVDIDESFDVLLAGFPCQAFSYAGKQLGFADTRGTLFFEVERIIKK
                     NKPKLCLLENVRGLTSHDKGRTFSTILKSLHNLGYHVEYRLLNTSNFGVPQNRVRIYII
                     ASLEKEVTLTIPNDLGAKDTHNYKPSKGGHDFYTESKVSDILEDSPDESYDCSDWFKQR
                     LEDIFEGDLNKVHGIRLIDTRNGNSLHSWDLGLKGECSNDEIIFMNLLIANRRKHIFGT
                     HQDGKALSKAQIETFFKHSKTTNIIKNLIKKGYLKEKNGLYNPVCGNMSFEVFKFLDPN
                     KVSITLTASDANRLGVYHNNRLRRLTPRECARLQGYPDSYILHPKDSMAYKQLGNAVSV
                     PVIKNIFLDIMKNNFI"
                     /name="DNA cytosine methyltransferase"
     gene            complement(2618..2851)
                     /locus_tag="QDX13_25210"
     CDS             complement(2618..2851)
                     /locus_tag="QDX13_25210"
                     /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="WHF95334.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNERVMKLSQQVQHLSERTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2858..3376)
                     /locus_tag="QDX13_25215"
     CDS             complement(2858..3376)
                     /locus_tag="QDX13_25215"
                     /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="WHF95330.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRRLGESVSEAVTSNE
                     TKIKDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGVMLLGIVFLLFTASG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPYQ
                     GKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            complement(3414..3845)
                     /locus_tag="QDX13_25220"
                     /pseudo=""
     CDS             complement(3414..3845)
                     /locus_tag="QDX13_25220"
                     /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            complement(4054..4377)
                     /locus_tag="QDX13_25225"
     CDS             complement(4054..4377)
                     /locus_tag="QDX13_25225"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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="WHF95335.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4442..4633
                     /locus_tag="QDX13_25230"
     CDS             4442..4633
                     /locus_tag="QDX13_25230"
                     /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="WHF95331.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(4712..4796)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.674"
                     /coverage="100.0"
                     /evalue="6.569999999999999e-34"
     Typing          4816..5365
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.756"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2515..4064)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.794"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggagttcc aagaattaga aaatagcgca tgcttatatt ggcccaaaga acttgcagaa
       61 agagctgcat ctattagcgc cataagccct cttatagaga cccaagatga atttttatca
      121 atactaacaa tatcaacaaa taagcctaca tcttgttttg atgccgtacg gttatgcaat
      181 aagatatcac ccaacctatt tgtcaagcac ttaatggttt tgtcagatat tggaggcgaa
      241 agacttcatc gcttctttaa agatttagat aagatctacc ccgacagaat aatggagttc
      301 aatataggaa atagctctta ctcttaccaa ttcaatagca atagagcatg gacaaccaag
      361 aatttaaacg tagaaaaatc acggctcttg caacctgtaa gtgattttac acgtgaaatg
      421 cttgatgttt gcatgctgat cctatgggga ggtaatacta taaacaatac aaatcttcca
      481 accgaaatag aaaataactg tgttttgggg aatttaattg gaaacaaaga agcaatagaa
      541 cagtttgtaa aagaaagata tataatggtt agcaggcaaa caggaggtgc aacggcaaat
      601 gatcttggac acatatgcga gatctttata aaagaaaaac tttacaaact tattgataac
      661 aatatatctc tagatggaca ccatatcgat ggtgtaactc ataacgataa agatcttacg
      721 acttttgata ttgtagcaaa aaacacaaca acaaaaaaat gtgttggtat tgaaataagt
      781 tttcaagtta caacaaactc aacaatagaa agaaaagcag gattagccaa aagcagaaga
      841 gatttgctca attcaagagg acataaaata gcatatgtga ttgatgggtc tggtaatttt
      901 cagcgttcaa atgccatcaa aacaataatt aaccatagtg acatgaccgt taacttttca
      961 gataatggta taaattcact agcaacattc atctgcgaga cattgaaatg attaaatttg
     1021 ttgacctttt ttctggcaca ggtggtatta gacttggttt tgagcaagcc atgaaagaaa
     1081 ttggattgtc aacaaaatgc gtaaaaagct cagaaattga caaaaaagca tgcgaaacat
     1141 acaaacttaa cttcgacgaa gaatcatatt gtgatataca tgatgttgat atagatgaaa
     1201 gcttcgatgt tttattggca ggatttcctt gtcaggcgtt ctcttatgct ggaaaacaac
     1261 ttggttttgc agacacccga ggcacattat tttttgaagt agaaagaatc ataaagaaaa
     1321 acaagcctaa gttatgtctt ttggagaatg tgcgtggatt aacttcacat gataaaggaa
     1381 gaacattttc aacaatatta aaatctcttc ataatttagg gtatcatgtt gaatacagac
     1441 tattaaacac aagtaatttt ggtgtccctc aaaatagggt tagaatatat ataatagcct
     1501 cattagaaaa agaggtaaca cttactattc ctaatgatct tggagccaaa gatacgcaca
     1561 attacaaacc atccaaaggt ggtcatgatt tttatacaga atcaaaagtt tctgacatac
     1621 tagaggatag tccagacgag tcatatgatt gcagcgattg gttcaagcaa cgccttgaag
     1681 acatttttga aggtgaccta aataaagttc atggaatcag gctaattgac acaaggaacg
     1741 gaaactcctt gcactcttgg gatcttgggc taaaaggcga gtgctcaaat gatgaaataa
     1801 ttttcatgaa tttattaatt gcaaaccgta gaaagcatat ttttggcaca caccaagacg
     1861 gcaaggcttt gtcaaaagca caaattgaaa cattttttaa acatagcaaa accaccaaca
     1921 taataaaaaa tctaattaaa aagggttacc ttaaagagaa aaacggacta tacaacccag
     1981 tttgcggaaa tatgtctttt gaagtattca aattccttga cccaaataaa gtgtcaatta
     2041 cacttacggc atctgatgcc aatagacttg gagtctatca caacaataga ctgcgacgcc
     2101 ttacgccaag agaatgcgca agactacaag gttacccaga ctcatatatc ttacacccaa
     2161 aagatagcat ggcatataaa caattaggga atgctgtaag cgtaccagtc ataaaaaata
     2221 tttttcttga tataatgaag aataacttta tataaaccat attactagca aaactgctct
     2281 atggttattt aattaaattt aacagattta ccataacgtc gcattacgcg caccgctaaa
     2341 acgcgttcag cgcgatcacg gcagcagaca ggtaaaaatg gcaacaaacc acccgaaaaa
     2401 ctgccgcgat cgcgcctgat aaattttaac cgcatgaata cctatgcaac cagatggtac
     2461 agaccacatt agcccgtctt aatccattta acctgccatt tttcatagtt tcaccatccc
     2521 agcgaaggac catccagtgt gcgttcctgt atttccagct ggcgctcacg ctccagggat
     2581 aacgcatgtt cgcgctcctg tatcaaccgt tcctctctta tctccagttc tcgctgtata
     2641 actggctcaa gcgttctgtc cgctcgctca agtgctgcac ctgctgactc aacttcatga
     2701 cccgctcgtt cagcatcgcg ttgtcccgtt gcgtaagcga aaacattttc tgcaattcca
     2761 cgaaggcgct ctcccattcg ttcagccgct gcatatagtc ctgttgcagt tgctctaatg
     2821 cgttcagcaa atgtctttcc agctccgtca ctctgtgtca ctccgtcagt tgtacccagt
     2881 ccttcccctg atagggaatc acctctgctg atttcccgta cggaaggacc agaaatttcc
     2941 tgttcccgtc ctgaacaaac tccacgcccc atgtcttcgc gttcagtttc tgcaatgtct
     3001 cttcctgtat cctgatttct tccaggttcg cctgtatccg cccgccaaga taccagagcg
     3061 tcccgccact cgcggtaaac aggagaaaga ctatccccag caacatcacg cccgtattcc
     3121 ctgccagctt taacacgtcc ttcctgtgct gcatcatcgc ctctttcacc ccttcccggt
     3181 gtttttccag cgatttctct gtcgaggctg tgaacagggc tatagcgtct ttgattttcg
     3241 tctcgtttga ggtcacagcc tcgctgacag actcgccgag cctcctgaac tcgtcgttca
     3301 gcattttctc tgtagattcg gctctctctt tcagcttttt ctcgaactcc gcgcccgtct
     3361 gtaaaagatt gctcataaaa tgctcctttc agtctgatat tcctcccgcc gttcgggtct
     3421 gcaatgctga tactgcttcg cgtcaccctg accacttcaa gtcccacctc tgtgagcgcc
     3481 tgaatcacat cctgacggcc ttttatctct ccggcacggt aaagcacatc aagcccccgt
     3541 gtaacgctct cagcaagcgc ctgtttcttt tccggcaggt tatcagggag agtcagcgtc
     3601 cggcggttct ccggggcgtt ggggtcatgc agcccgtaat ggtgattcac cagcgtctgc
     3661 caggcatcaa ttctcggcct gtctgcacgg tcgtagtacg gctggaggcg ttttccggtc
     3721 tgtagctcca tgttcggaat gacaaaattc agctcaagcc gtcccttgtc ctggtgctcc
     3781 acccacagga tgctgtactg attcttttcg agaccgggca tcagtacacg ctcaaaactc
     3841 gccatcactt tttcacgccc tcccggcggc agctccttct ccgcgaacga cagaacacct
     3901 gacgtgtatt tcttcgcaaa tggcgtggca tcgatgagtt cccggacttc ttccggatca
     3961 ccctgaagca ccgttgcccc ttcccggtta cgctcccttc ccagcaggta atcaaccgga
     4021 ccactgccac caccttttcc cctggcatga aacttaacta tcatcccgca ctccctgttc
     4081 cctgacggcc agacgcagcc ggcgcagctc atccccgatg gccatcagtg cggccaccac
     4141 ctgaacccgg tcaccggaag accactgccc gctgttcacc ttacgggctg tctgattcag
     4201 gttatttccg atggcggcca gctgacgcag taacggcggc gccagtgtcg gcagcttccc
     4261 ggaacgggca accggctcac ccaggcagac ccgccgcatc cataccgcca gttgtttacc
     4321 ctcacagcgt tccagtaacc gggcatgttc atcatcagta acccgtatcg tgagcatcct
     4381 ctcgcgtttc atcggtatca ttactcccgt gaacagaaat cccccttaca cggaggcatc
     4441 agtgactaaa caggaaaaaa ccgcccttaa catggcccgc tttatcagaa gccagacatt
     4501 aacgctgctg gagaagctca acgaactgga cgcagatgaa caggcagata tctgtgaatc
     4561 gcttcacgac cacgccgatg agctttaccg cagctgcctc gcacgtttcg gggatgacgg
     4621 tgaaaacctc tgacacatgc agctcccgga gacggtcaca gcttgcctgt gagcggatgc
     4681 cgggagcaga caagcccgtc agggcgcgtc agggggtttc ggggcgaagc cctgaaccag
     4741 tcacgtagcg atagcggagt gtatactggc ttaactatgt ggcatcagtg cggattataa
     4801 gaaaagagca ccatatgcgg tgtgaaatac agcacagatg cgtaaggaga aaataccgca
     4861 tcaggcgctc ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt cggctgcggc
     4921 gagcggagtc ggctcactca aaggcggtaa tacggttatc cacagaatca ggggataagg
     4981 ccggaaagaa catgtgagca aaaaggcaaa gaacaacaaa aggccgcgcc gctggcgttt
     5041 ttccataggc tccgcccccc tgacgagcat cacaaaaatc gacgctcaag tcagaggtgg
     5101 cgaaacccga caggactata aagataccag gcgtttcccc ctggaagctc cctcgtgcgc
     5161 tctcctgttc cgaccctgcc gcttaccgga tacctgtccg cctttctccc ttcgggaagc
     5221 gtggcgcttt ctcatagctc acgctgttgg tatctcggct cggtgtaggc cgttcgctcc
     5281 aagctgggct gtgtgcacga accccccgtt cagcccgacc gctgcgcctt atccggtaac
     5341 tatcgtcttg agtccaaccc ggtaagacac gacttaacgc cactgtcagc agccattggt
     5401 agagggtgta caagaaattg ctgatacgga gttcttgaag tgaaggcccg actgcggcta
     5461 cactgaaagg acagatttgg tggcagcggt cttgtacgcc ctgttacctt gggttagaaa
     5521 gcctgagaaa cttctaacct tcgaaaaacc cacgcctgag aacgtgggtt ttttcgttta
     5581 cgcccgtaga gattacccat cataggggtg taactcaagg tctatttgga tagttttacc
     5641 aaggaataat c
//
