LOCUS       CP122744                5777 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1745 plasmid unnamed4, complete
            sequence.
ACCESSION   CP122744
VERSION     CP122744.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549622
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5777)
  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 5777)
  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                   :: 272x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:23:51
            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)                     :: 5,733
            CDSs (total)                      :: 5,605
            Genes (coding)                    :: 4,395
            CDSs (with protein)               :: 4,395
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 1,210
            CDSs (without protein)            :: 1,210
            Pseudo Genes (ambiguous residues) :: 0 of 1,210
            Pseudo Genes (frameshifted)       :: 1,054 of 1,210
            Pseudo Genes (incomplete)         :: 160 of 1,210
            Pseudo Genes (internal stop)      :: 64 of 1,210
            Pseudo Genes (multiple problems)  :: 63 of 1,210
            Pseudo Genes (short protein)      :: 4 of 1,210
            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..5777
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1745"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            1..513
                     /locus_tag="QDY25_26805"
     CDS             1..513
                     /locus_tag="QDY25_26805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001445155.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHG96564.1"
                     /translation="MSARARKAGKRNQSERRQDLIEKLWEDDEIDTWHRLENDGYSTVP
                     RYLPLIGDLMDGLSKGSPLSTTYLALWFRVSDEGLIEIRDKAALAFESGFASERGVTTW
                     AGRMKKLKELGFISCREGSTGEFHYVLIVHPLVAVKKLLDEGIIPKGKTYNILSERVIE
                     VGASWEG"
                     /name="hypothetical protein"
     gene            680..1009
                     /locus_tag="QDY25_26810"
     CDS             680..1009
                     /locus_tag="QDY25_26810"
                     /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="WHG96565.1"
                     /translation="MKFKEEQRFFCRERYEGSKTIVHRILTAIENGEYITAFISKGQGQ
                     RYYHLSHHDDFILMEIRKPQDRNNSLRIHVVTAYTLDEWGTVNKGRNLRFRYVLEQRLQ
                     GKKIV"
                     /name="hypothetical protein"
     gene            complement(2557..2748)
                     /locus_tag="QDY25_26815"
     CDS             complement(2557..2748)
                     /locus_tag="QDY25_26815"
                     /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="WHG96566.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2813..3136
                     /locus_tag="QDY25_26820"
     CDS             2813..3136
                     /locus_tag="QDY25_26820"
                     /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="WHG96567.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3345..3776
                     /locus_tag="QDY25_26825"
                     /pseudo=""
     CDS             3345..3776
                     /locus_tag="QDY25_26825"
                     /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            3814..4332
                     /locus_tag="QDY25_26830"
     CDS             3814..4332
                     /locus_tag="QDY25_26830"
                     /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="WHG96561.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            4339..4572
                     /locus_tag="QDY25_26835"
     CDS             4339..4572
                     /locus_tag="QDY25_26835"
                     /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="WHG96562.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            5243..5407
                     /locus_tag="QDY25_26840"
     CDS             5243..5407
                     /locus_tag="QDY25_26840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000968835.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHG96563.1"
                     /translation="MMDKDTTTLKRTLAHNRAFSDNINRSGIAWCYNTEIVLAACEAIE
                     AELQRRGCL"
                     /name="hypothetical protein"
     Typing          2382..2465
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.07e-36"
     Typing          1719..1940
                     /name="rep_cluster_2392"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.825"
                     /coverage="87.0"
                     /evalue="1.42e-85"
     Typing          3127..4676
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.794"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgtccgcaa gagcaagaaa agcaggtaag agaaatcagt cagaacgacg tcaggatttg
       61 attgaaaaat tgtgggaaga cgacgaaatc gatacttggc atcgacttga aaatgatggg
      121 tactcaacag ttccacgtta tttgcctttg ataggcgatc tcatggatgg tctgtcaaaa
      181 ggatcaccat tatcaacaac ctacttggct ttatggttca gggtttctga tgaggggttg
      241 attgaaataa gagataaagc agcactggct tttgaatcag ggttcgctag tgaaagaggc
      301 gtaactacat gggcagggag aatgaaaaag ctaaaagaac tggggttcat atcctgtcgt
      361 gaaggcagca ccggtgaatt tcattacgtg ttaattgttc acccattagt tgcagtcaaa
      421 aagctgcttg atgaagggat tatccctaaa ggaaagactt ataacatttt gtcggagcgt
      481 gtaattgagg tgggagcctc ttgggagggt taaatggcgg gcacagtatg gcgtgacata
      541 agaacgggag agactgtttt tcctatgggg cactctgcac cctcagaggt gctgtgttga
      601 tgtaaacggt acttctgtag atatagaaat tagttttggt tttcatgttt ttactgatga
      661 aaaacaaacc ggaatgctga tgaaatttaa ggaggaacag aggttttttt gtagggaacg
      721 ctatgagggc agcaaaacta tcgttcacag aatacttaca gcgatagaaa acggtgaata
      781 cattacagca tttatttcaa aggggcaggg gcagcggtat taccatctta gccatcatga
      841 tgacttcatt ttgatggaaa taagaaagcc tcaagataga aataattctt tgcgtattca
      901 tgttgttaca gcttacacgc ttgatgaatg ggggactgta aataaaggac gtaacctgcg
      961 gtttagatat gtgctggaac agcgactgca gggaaagaag attgtgtaaa aaacaaaaag
     1021 cgcctaaggc agcctttgtt ttttgcagaa tttcggtctg gcctttcgtt atcccgctca
     1081 caggctggga gggtgtgacc cccggcatca gcacccctct ctcgaggttc cggtttgtgc
     1141 tgacaacatt agtatcctat tccacatgtt cgttgtcaaa ctagcgtact ttttggtgtt
     1201 cattggtgtt tataggttgt catttaccct ctttgtggtt ataagtgttt ataggttttc
     1261 attgtttttt ataggtgttc atatgaagtt gcttgatagt aatgaagtgt gtgagctctt
     1321 aggcatcagt aagtccactt tgtatcgttg gtgcggggtg tctgaggatt tttctggctt
     1381 gggtctaagt agcggtcttc ctcaggctaa cgctactcag aactctttag gcagggaaaa
     1441 taggctcgtt aggagggaat tacagcaaaa cgctctcggt gtcgaagaga cgccaagcga
     1501 cttccctcgt cctttcaaga tcggtcgttc gtttaaatgg aaagacgccg aaattatggc
     1561 ttggcttgaa acgcgacgcg tttgattgat agatcttctt gagatcattt ggatctcgtc
     1621 gtagtctttt gtcctgtaaa cgaaaaaacc accatggcag gtggtttttc gaaggttatt
     1681 taatcctggc agattgaata accgtggtaa cagccttgtg cgagacgtgt caccaaatct
     1741 gtcctttcag tgtagcctca ctaaggccac cacttcaaga actttgaata catctctcgc
     1801 acatcctgtt taccaatggc taccgccact ggcgattttt cgtgtctgtt ccgggttgga
     1861 ctcaagatga tagttaccgg gacaacgtgg tagtcgggct gaacgggggg ttcttgcata
     1921 cagcccagct tggagcgaac tgtctaaacg gaacgggacg tggtgattta ggtaaagctt
     1981 ccaccacaac acggatgccg caggacggga acaggagagc gcaagaggga gccgccaggg
     2041 ggaaacgcct ggtatcttta agtcctgtcg ggtttcgcca cctctgactt gagcgtcgat
     2101 ttttgtgatg ctcgtcaggg gggcggagcc tatggaaaaa cgccagcggc gtggccttct
     2161 ctgggttctt gttttttgct cacatgtttc ttttggtgtt atcccctgat tctgtggata
     2221 accgcattac cgtctttgag tgagctgata ccgctcgccg cagccgaacg accgagcgta
     2281 gcgagtcagt gagcgaggaa gcggaagagc gtcggaagtt gcattttctc cttacacatc
     2341 tgtgcggcat ttcacacccg gcatggcgca cttttcatac aatccgcact gatgccgcat
     2401 ggttaagcca gtatacactc cgctatcgct acgtgactgg gtcatggctg cgccccgaca
     2461 cccgcaaggt caacggcctg acgcgccctg acgggcttgt ctgctcccgg catccgctca
     2521 cagacaagct gtgtccgtct ccgggagctg tatgtgtcag aggttttcac cgtcatcccc
     2581 gaagcgtgcg aggcagctgc ggtaaagctc atcggcgtgg tcgtgaagcg attcacagat
     2641 gtctgcctgt tcatccgcgt ccagttcgtt gagcttttcc agcagcgtta atgtctggct
     2701 tctgataaag cgggccatgt taagggcggt tttttcctgt ttagtcactg atgcctccgt
     2761 gtaagggggg atttctgttc atggggtaat gataccgatg aaacgcgaga ggatgctcac
     2821 gatacgggtt actgatgatg aacatgcacg gttactggaa cgctgtgagg gtaaacagct
     2881 ggcggtatgg atgcggcggg tctgtctggg tgagccggtt gcccgttccg ggaagctgcc
     2941 gacactggcg ccgccgttac tgcgccagct ggctgccatc gggaataatc tgaatcagac
     3001 ggcgaggaag gtgaacagcg ggcagtggtc ttccggtgac cgggttcagg tggtggccgc
     3061 actgatggcc atcgagagag agttgcgcag cttacggcag gtcgtcaggg aacatggagc
     3121 gcgggatgat agttaagttt catgccaggg gaaaaggcgg tggcagtggt ccggttgatt
     3181 acctgctggg aagggagcgt aaccgggaag gggcaacggt gcttcagggt aatccggaag
     3241 aagtccggga actcatcgat gccacgccat ttgcgaagaa atacacgtca ggtgttctgt
     3301 cgttcgcgga gaaggagctg ccgccgggag gacgtgaaaa ggtgatggcg agctttgagc
     3361 gtgtactgat gcccggtctc gaaaaaaatc agtacagcat cctgtgggtg gagcaccagg
     3421 acaagggacg gcttgagctg aattttgtca ttccgaacat ggagctacag agcggaaaac
     3481 gcctccagcc gtactacgac cgggcagaca ggccgagaat tgatgcctgg cagacgctgg
     3541 ttaatcacca ttacgggctg catgacccca acgccccgga gaaccgccgg atactgactc
     3601 tccctgataa cctgccggaa acgaaacagg cgcttgcaga gagcgtcaca cgcgggatag
     3661 acgctcttta tcatgtcggg gagataaaag gccgtcagga tgtgattcag gcgctcacag
     3721 aggcagggct tgaagtggtc agggtgacgc gaagcagtat cagcattgca gacccgaacg
     3781 gcgggaagaa tatcagactg aaaggagcat tctatgagca atcttttaca gacgggcgcg
     3841 gagttcgaga aaaagctgaa agagagagcc gaatctacag agacaatgct gaacgacgag
     3901 ttcagcaagc tcgaaaaatc tgtaagcaag gctgtgacat caaacgagac gaaaatcaaa
     3961 gacgctatag ccctgttcac agcttcgaca gaggaatcac tgaaaaaaca ccgggaaggg
     4021 gtgaaagagg cgatgatgca gcacaggaag gacgtgttaa agctggcagg gaatacgggc
     4081 atgatgttac tggggatggt ccttttcctg tttaccgtga gtggcgggac gctctggtat
     4141 cttggcgggc ggatacaggc gaacctggaa gaaatcagga tacaggaaga aacattgcag
     4201 aaactgaacg cgaagacatg gggcgtggag tttgtgcagg acgggagaag gaaatttctg
     4261 gtccttccgt acgggaaatc ggcaacggtg attccctatc aggagaagga ctgggtacaa
     4321 ctgacggagt gacacagagt gacggagctg gaaagacatt tgctgaacgc cttagagcaa
     4381 ctgcaacagg actatatgca gcggctgagc gaatgggaga gcgccttcgt ggaattgcag
     4441 aaaatgtttt cgcttacgca acgggacaac gcgatgctga acgagcaggt catgcagttg
     4501 agtcagcagg tgcagcactt gagcgagcgg acagaacgct tgagccagtt atacagcgag
     4561 aacaggagat aagggacgaa cggctgatac aggagcgcga acatgagtta tccctggagc
     4621 gtgagcgcca gctggaaata caggaacgga cactggatgg cccttcgctg ggatggtaat
     4681 cagagacagg ctaaaatgtt gtcagcgcgt ttccggtgca ttttttggga taatggttgg
     4741 ttcgggggca ccgggaacgc gcttcagtca gaccttgctg aaaacacagg aacgcgttaa
     4801 aacgcatacg ggcgcgattc tggtgtgtct tttgttgctg tgttttgcct ctattgccag
     4861 atcgcgctca ttcccctgaa cttctgtttt cccgctccgg tccccgtctt cttcgcttcc
     4921 gaaagcatga aaaaaatccg tttcagctgt ctctggctgg caattcctgc gtgattcaca
     4981 tggctgcata gctatgcatg tggttaaaat ttaccgggtg cgatcgcggc agtttttcgg
     5041 gtggtttgtt gccattttta cctgtctgct gccgtgatcg caccgaacgc gtttctgcgg
     5101 tgcgggcaac ggatgttatg gtaaatattg gtgctctggg atgaagcgaa aataggcttt
     5161 ttttcgctat tttagcctgt tcaggaacgg caagagtaaa tatctgggag catgaagctc
     5221 gttaacctga atggagatcc tgatgatgga caaagatacc accaccctaa aacgcacttt
     5281 ggctcataat cgagccttta gcgataatat taaccgcagt ggcatagcct ggtgctataa
     5341 cactgagatt gtactcgctg cttgtgaggc gattgaagcc gaactacaac ggcgaggatg
     5401 tttgtaacaa taagaaaacc cgcatcagcg ggttttttag tctctgagac gcgctaccgc
     5461 taaattattt ttctctctat ccgccctggc ttgcccccta caaccccatg gagcacaagg
     5521 agcacaggga gaaccatcga gcacaacgag cacaatgagc accgccttcc tcttataaat
     5581 cattattaat catataatta aacaacttca ttgtaatata tattactttt tatgttttta
     5641 aatgtaatgt ttattgcgat ttagcttgtt tttaactcta ttttttcaga tgagaacaag
     5701 ctgccagcaa tgaataacta tttgatttta ttggtttttt caataaatta gtgtccatag
     5761 acaaacggga gacgact
//
