LOCUS       CP122734                5130 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1744 plasmid unnamed1, complete
            sequence.
ACCESSION   CP122734
VERSION     CP122734.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549621
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5130)
  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 5130)
  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                   :: 264x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:43:14
            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)                     :: 5,568
            CDSs (total)                      :: 5,440
            Genes (coding)                    :: 5,017
            CDSs (with protein)               :: 5,017
            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)              :: 423
            CDSs (without protein)            :: 423
            Pseudo Genes (ambiguous residues) :: 0 of 423
            Pseudo Genes (frameshifted)       :: 282 of 423
            Pseudo Genes (incomplete)         :: 139 of 423
            Pseudo Genes (internal stop)      :: 52 of 423
            Pseudo Genes (multiple problems)  :: 45 of 423
            Pseudo Genes (short protein)      :: 4 of 423
            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..5130
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1744"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed1"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            join(4818..5130,1..11)
                     /locus_tag="QDX03_26335"
     CDS             join(4818..5130,1..11)
                     /locus_tag="QDX03_26335"
                     /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="WHG92208.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            220..651
                     /locus_tag="QDX03_26340"
                     /pseudo=""
     CDS             220..651
                     /locus_tag="QDX03_26340"
                     /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            689..1207
                     /locus_tag="QDX03_26345"
     CDS             689..1207
                     /locus_tag="QDX03_26345"
                     /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="WHG92209.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            1214..1447
                     /locus_tag="QDX03_26350"
     CDS             1214..1447
                     /locus_tag="QDX03_26350"
                     /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="WHG92210.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2391..2669)
                     /locus_tag="QDX03_26355"
     CDS             complement(2391..2669)
                     /locus_tag="QDX03_26355"
                     /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="WHG92211.1"
                     /translation="MIDIQKLISWLGVEGAKAGLDKSEMTNAELIESFGNLLPKNPSKL
                     KRSDLVEEIILATRRMTHKSVEELMEMSKEDLYSYFHDQKYSRKRTS"
                     /name="hypothetical protein"
     gene            complement(2745..3551)
                     /locus_tag="QDX03_26360"
     CDS             complement(2745..3551)
                     /locus_tag="QDX03_26360"
                     /inference="COORDINATES: protein motif:HMM:NF025001.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0005524 - ATP binding [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WHG92205.1"
                     /translation="MAVTVGFISEKGGVGKTTSCYHIAEGLSRFHEKRVLVIDADYQRG
                     GITGRFFPKLIENFGNQAPQGTTLFNKYQQLYSAAQQTTDIDIIKFNSGIDVIPADPRL
                     STVSTDKLPSTNNIRSNNAILLQHLKTISAVLSPIADNYDYILIDSHPEVSDVMRSIIY
                     ASDYCVSPVKLDRQSSIGVATVIGEINNVNEDIEMLRKALQVGDSYKDTVFAGAMGMMA
                     REYAEELKQTEQYEYNRLRQAGDIFKHYITEGDGLRVAAAELRFSV"
                     /name="ParA family protein"
     gene            complement(3800..3931)
                     /locus_tag="QDX03_26365"
     CDS             complement(3800..3931)
                     /locus_tag="QDX03_26365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WHG92206.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKAPLAAAMSKGVYKIY"
                     /name="replication initiation protein"
     gene            complement(4562..4753)
                     /locus_tag="QDX03_26370"
     CDS             complement(4562..4753)
                     /locus_tag="QDX03_26370"
                     /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="WHG92207.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4294..4467
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.0"
                     /coverage="100.0"
                     /evalue="5.699999999999999e-63"
     Typing          complement(3784..4370)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.568"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          2..1551
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4789..5129
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.105"
                     /coverage="97.0"
                     /evalue="2.02e-61"
ORIGIN
        1 atgatagtta agtttcatgc caggggaaaa ggcggtggca gtggtccggt tgattacctg
       61 ctgggaaggg agcgtaaccg ggaaggggca acggtgcttc agggtaatcc ggaagaagtc
      121 cgggaactca tcgatgccac gccatttgcg aagaaataca cgtcaggtgt tctgtcgttc
      181 gcggagaagg agctgccgcc gggaggacgt gaaaaggtga tggcgagctt tgagcgtgta
      241 ctgatgcccg gtctcgaaaa aaatcagtac agcatcctgt gggtggagca ccaggacaag
      301 ggacggcttg agctgaattt tgtcattccg aacatggagc tacagagcgg aaaacgcctc
      361 cagccgtact acgaccgggc agacaggccg agaattgatg cctggcagac gctggttaat
      421 caccattacg ggctgcatga ccccaacgcc ccggagaacc gccggatact gactctccct
      481 gataacctgc cggaaacgaa acaggcgctt gcagagagcg tcacacgcgg gatagacgct
      541 ctttatcatg tcggggagat aaaaggccgt caggatgtga ttcaggcgct cacagaggca
      601 gggcttgaag tggtcagggt gacgcgaagc agtatcagca ttgcagaccc gaacggcggg
      661 aagaatatca gactgaaagg agcattctat gagcaatctt ttacagacgg gcgcggagtt
      721 cgagaaaaag ctgaaagaga gagccgaatc tacagagaca atgctgaacg acgagttcag
      781 caagctcgaa aaatctgtaa gcaaggctgt gacatcaaac gagacgaaaa tcaaagacgc
      841 tatagccctg ttcacagctt cgacagagga atcactgaaa aaacaccggg aaggggtgaa
      901 agaggcgatg atgcagcaca ggaaggacgt gttaaagctg gcagggaata cgggcatgat
      961 gttactgggg atggtccttt tcctgtttac cgtgagtggc gggacgctct ggtatcttgg
     1021 cgggcggata caggcgaacc tggaagaaat caggatacag gaagaaacat tgcagaaact
     1081 gaacgcgaag acatggggcg tggagtttgt gcaggacggg agaaggaaat ttctggtcct
     1141 tccgtacggg aaatcggcaa cggtgattcc ctatcaggag aaggactggg tacaactgac
     1201 ggagtgacac agagtgacgg agctggaaag acatttgctg aacgccttag agcaactgca
     1261 acaggactat atgcagcggc tgagcgaatg ggagagcgcc ttcgtggaat tgcagaaaat
     1321 gttttcgctt acgcaacggg acaacgcgat gctgaacgag caggtcatgc agttgagtca
     1381 gcaggtgcag cacttgagcg agcggacaga acgcttgagc cagttataca gcgagaacag
     1441 gagataaggg acgaacggct gatacaggag cgcgaacatg agttatccct ggagcgtgag
     1501 cgccagccgg aaatacagga atggacacag gatggccctt cgcttggatg gtaatcagag
     1561 acaggctaaa atgttgtcag cgcgtttccg gtgcattttt tgggataatg gttggttcgg
     1621 gggcaccggg aacgcgcttc agtcagacct tgctgaaaac acaggaacgc gttaaaacgc
     1681 atacgggcgc gattctggtg tgtcttttgt tgctgtgttt tgcctctatt gccagatcgc
     1741 gctcattccc ctgaacttct gttttcccgc tccggtcccc gtcttcttcg cttccgaaag
     1801 catgaaaaaa atccgtttca gctgtctctg gctggcaatt cctgcgtgat tcacatggct
     1861 gcatagctat gcatgtggtt aaaatttacc gggtgcgatc gcggcagttt ttcgggtggt
     1921 ttgttgccat ttttacctgt ctgctgccgt gatcgcaccg aacgcgtttc tgcggtgcgg
     1981 gcaacggatg ttatggtaaa taggttcgtc cggtatgctc aatgaagata agccagtttt
     2041 taactgattc ttttttcgat cgtttgaaac aagaatagta tttggcaata gcggttgtct
     2101 ttatctagcc aagcacaatt agctagatct atgtaaccgt tattttgaga cgatccatat
     2161 ccgatgaccg tcatcgcttt tgattctgac tttaagtaaa ctatatcgcc tatattaaat
     2221 ggcatttttt tatcctataa aaagccacct cacaggtggc ttttatttat gcatgattcc
     2281 ctttcgctac gcgacgatac atgccaatat cacttatctc acttattgtg aactcggtta
     2341 gatttttctt tgctgagctc ccaggtctga tttcaagagt atataacaaa tcaagaagtt
     2401 ctttttctgc tatatttctg atcgtggaaa tatgaataca gatcttcttt tgacatttcc
     2461 atcagttctt caactgattt atgtgtcatt ctccttgttg ctaaaataat ctcctcaacg
     2521 agatcggagc gttttaattt gcttgggttc tttggaagta aattaccaaa ggattcaatt
     2581 agctcggcat tagtcatttc acttttatcc aagccagctt tagctccctc aacgccaagc
     2641 caagatatca gtttttggat atctatcatc gacaagtcct cataaactca atcgtcaagt
     2701 tcttaaactg tgacgcttgt ttgtaagcgt tacttatctg tacatcatac actgaaacgc
     2761 agctctgctg cagctactct tagcccatca ccttccgtta tgtagtgctt gaagatgtca
     2821 cctgcttgcc gaagcctgtt gtattcatat tgctctgttt gcttcagttc ttctgcatat
     2881 tctctggcca tcattcccat tgctccggcg aaaactgtgt ccttatatga atcgccgact
     2941 tgcagtgcct ttcttagcat ttcaatatct tcatttacat tatttatctc acctatgacc
     3001 gtggccacac caatagatga ttgcctgtct agttttaccg gtgatacaca ataatctgat
     3061 gcgtagatta tagagcgcat gacatcagaa acttcggggt gtgaatcaat caatatgtag
     3121 tcataattat ctgcaatagg tgataataca gcgcttatgg tttttaaatg ctgtaaaaga
     3181 atggcattgt tcgatcttat attgtttgta ctaggtagct tatcagttga aacggttgat
     3241 aagcgagggt cggctggaat gacatcgata ccactattaa atttaattat gtctatgtca
     3301 gtcgtttgtt gtgccgcgct atataattgc tgatacttgt taaataacgt tgttccttgc
     3361 ggtgcttgat ttccaaagtt ttcgatcagt ttagggaaaa atcttccagt tatacccccg
     3421 cgttgataat ctgcatctat aactaaaaca cgtttttcat gaaaacgact aagtccttcg
     3481 gcaatgtgat aacaggacgt tgttttacca accccacctt tctcactaat aaacccaact
     3541 gtcacagcca tttttattcc ttacaaatct cttttttttg gtagagggaa cagcgtcaac
     3601 gctttccttg acgttcagta taacgtcagc gtactcttag ccatcaaacg aaaaaaaccg
     3661 actggggagt cggttttttc gagggttcag taagttgggg aacttctgaa ccgtggtaac
     3721 agggtgtaca agaccgctga aaccaaattc tgttattcca gtttagcctc tctaaggctg
     3781 atacttcaag aactctcact cagtaaatct tgtacacccc tttactcatg gctgctgcca
     3841 gtggcgcttt gtcgtgtctt tccgggttgg actcaagtcg atagttaccg gaacaggcgc
     3901 agcagtcgga ctgaacgggg ggttcgtgca tacagtccag cttggagcga actgcctacc
     3961 cggaactgag tgtcaggcgt ggaatgagat aaacgcggcc ataacagcgg aatgacaccg
     4021 gtaaaccgaa aggcaggaac aggagagcgc acgagggagc caccaggggg aaacgcctgg
     4081 tatctttata gtcctgtcgg gtttcgccac cactgatttg agcgtcagat ttcgtgatgc
     4141 ttgtcagggg ggcggagcct atggaaaaac ggcttcgccg cgaccctatc gcttccctgt
     4201 taagtatctt cctggcatct tccaggaaat ctccgccccg ttcgtaagcc atttccgctc
     4261 gccgcagtcg aacgaccgag cgtagcgagt cagtgagcga ggaagcggaa tatatcctgt
     4321 attacatatt ctgctgacgc tccggtgccg ccttttttct cctgccacat gaagcacttt
     4381 cctgataccc gcactcatgc caacatagta agccagtata cactccgcta tcgctacgtg
     4441 actgggtcat ggctgcgccc cgacacccgc aaggtcaacg gcctgacgcg ccctgacggg
     4501 cttgtctgct cccggcatcc gctcacagac aagctgtgtc cgtctccggg agctgtatgt
     4561 gtcagaggtt ttcaccgtca tccccgaagc gtgcgaggca gctgcggtaa agctcatcgg
     4621 cgtggtcgtg aagcgattca cagatgtctg cctgttcatc cgcgtccagt tcgttgagct
     4681 tttccagcag cgttaatgtc tggcttctga taaagcgggc catgttaagg gcggtttttt
     4741 cctgtttagt cactgatgcc tccgtgtaag gggggatttc tgttcatggg gtaatgatac
     4801 cgatgaaacg cgagaggatg ctcacgatac gggttactga tgatgaacat gcacggttac
     4861 tggaacgctg tgagggtaaa cagctggcgg tatggatgcg gcgggtctgt ctgggtgagc
     4921 cggttgcccg ttccgggaag ctgccgacac tggcaccgcc gttactgcgc cagctggctg
     4981 ccatcgggaa taatctgaat cagacggcga ggaaggtgaa cagcgggcag tggtcttccg
     5041 gtgaccgggt tcaggtggtg gccgcactga tggccatcga gagagagttg cgcagcttac
     5101 ggcaggtcgt cagggaacat ggagcgcggg
//
