LOCUS       NZ_CP122763             4811 bp    DNA     circular CON 08-JUN-2024
DEFINITION  Escherichia coli strain ETEC1739 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP122763
VERSION     NZ_CP122763.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32549616
            Assembly: GCF_030013575.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4811)
  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 4811)
  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                   :: 225x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030013575.1-RS_2024_06_08
            Annotation Date                   :: 06/08/2024 05:11:44
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,204
            CDSs (total)                      :: 5,086
            Genes (coding)                    :: 4,727
            CDSs (with protein)               :: 4,727
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 359
            CDSs (without protein)            :: 359
            Pseudo Genes (ambiguous residues) :: 0 of 359
            Pseudo Genes (frameshifted)       :: 124 of 359
            Pseudo Genes (incomplete)         :: 249 of 359
            Pseudo Genes (internal stop)      :: 50 of 359
            Pseudo Genes (multiple problems)  :: 58 of 359
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122763.1.
            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..4811
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1739"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            1..885
                     /locus_tag="QDW95_RS24675"
                     /old_locus_tag="QDW95_24675"
     CDS             1..885
                     /locus_tag="QDW95_RS24675"
                     /old_locus_tag="QDW95_24675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505259.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WP_001505259.1"
                     /translation="MAVTVGFISEKGGVGKTTSCYHIAEGLSRFHEKRVLVIDADYQRG
                     GITGRFFPKLIENFGNQAPQGTTLFNKYQQLYSAAQQTTDIDIIKFNSGIDVIPADPRL
                     STVSTDKLPSTNNIRSNNAILLQHLKTISAVLSPIADNYDYILIDSHPEVSDVMRSIIY
                     ASDYCVSPVKLDRQSSIGVATVIGEINNVNEDIEMLRKALQVGDSYKDTVFAGAMGMMA
                     REYAEELKQTEQYEYNRLRQAGDIFKHYITEGDGLRVAAAERVSVYDVQISNAYKQASQ
                     FKNLTIEFMRTCR"
                     /name="ParA family protein"
     gene            882..1283
                     /locus_tag="QDW95_RS24680"
                     /old_locus_tag="QDW95_24680"
     CDS             882..1283
                     /locus_tag="QDW95_RS24680"
                     /old_locus_tag="QDW95_24680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505260.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001505260.1"
                     /translation="MIDIQKLISWLGVEGAKAGLDKSEMTNAELIESFGNLLPKNPSKL
                     KRSDLVEEIILATRRMTHKSVEELMEMSKEDLYSYFHDQKYSRKELLDLLYTLEIRPGS
                     SAKKNLTEFTISEISDIGMYRRVAKGNHA"
                     /name="hypothetical protein"
     gene            complement(2103..2336)
                     /locus_tag="QDW95_RS24685"
                     /old_locus_tag="QDW95_24685"
     CDS             complement(2103..2336)
                     /locus_tag="QDW95_RS24685"
                     /old_locus_tag="QDW95_24685"
                     /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="WP_000137441.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2343..2861)
                     /locus_tag="QDW95_RS24690"
                     /old_locus_tag="QDW95_24690"
     CDS             complement(2343..2861)
                     /locus_tag="QDW95_RS24690"
                     /old_locus_tag="QDW95_24690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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="WP_282869401.1"
                     /translation="MSNLLQTGADFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            complement(3071..3556)
                     /locus_tag="QDW95_RS24695"
                     /old_locus_tag="QDW95_24695"
     CDS             complement(3071..3556)
                     /locus_tag="QDW95_RS24695"
                     /old_locus_tag="QDW95_24695"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_282869399.1"
                     /translation="MIVKFHARGKGGGSGPVDYLLGRERNREGATVLRGNPEEIRELID
                     ATPFSKKYTSGVLSFAEKELPPGERERVMTSFERVLMPGLEKDQYSILWVEHQDKGRLE
                     LNFVIPNMELQSGKRLQPYYDRADRPRINAWQTLVNHHYGLRDPNAPENRRTLVTTG"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(3546..3869)
                     /locus_tag="QDW95_RS24700"
                     /old_locus_tag="QDW95_24700"
     CDS             complement(3546..3869)
                     /locus_tag="QDW95_RS24700"
                     /old_locus_tag="QDW95_24700"
                     /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="WP_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3937..4164
                     /locus_tag="QDW95_RS24705"
                     /old_locus_tag="QDW95_24705"
     CDS             3937..4164
                     /locus_tag="QDW95_RS24705"
                     /old_locus_tag="QDW95_24705"
                     /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="WP_282869400.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGERTGRRFPGRCQEDT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            4433..4564
                     /locus_tag="QDW95_RS24710"
                     /old_locus_tag="QDW95_24710"
     CDS             4433..4564
                     /locus_tag="QDW95_RS24710"
                     /old_locus_tag="QDW95_24710"
                     /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="hypothetical protein"
                     /protein_id="WP_001505258.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKAPLAAAMSKGVYKIY"
                     /name="hypothetical protein"
     Typing          4125..4556
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.161"
                     /coverage="82.0"
                     /evalue="0.0"
     Typing          complement(3081..3556)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="1.14e-99"
ORIGIN
        1 atggctgtga cagttgggtt tattagtgag aaaggtgggg ttggtaaaac aacgtcctgt
       61 tatcacattg ccgaaggact tagtcgtttt catgaaaaac gtgttttagt tatagatgca
      121 gattatcaac gcgggggtat aactggaaga tttttcccta aactgatcga aaactttgga
      181 aatcaagcac cgcaaggaac aacgttattt aacaagtatc agcaattata tagcgcggca
      241 caacaaacga ctgacataga cataattaaa tttaatagtg gtatcgatgt cattccagcc
      301 gaccctcgct tatcaaccgt ttcaactgat aagctaccta gtacaaacaa tataagatcg
      361 aacaatgcca ttcttttaca gcatttaaaa accataagcg ctgtattatc acctattgca
      421 gataattatg actacatatt gattgattca caccccgaag tttctgatgt catgcgctct
      481 ataatctacg catcagatta ttgtgtatca ccggtaaaac tagacaggca atcatctatt
      541 ggtgtggcca cggtcatagg tgagataaat aatgtaaatg aagatattga aatgctaaga
      601 aaggcactgc aagtcggcga ttcatataag gacacagttt tcgccggagc aatgggaatg
      661 atggccagag aatatgcaga agaactgaag caaacagagc aatatgaata caacaggctt
      721 cggcaagcag gtgacatctt caagcactac ataacggaag gtgatgggct aagagtagct
      781 gcagcagagc gcgtttcagt gtatgatgta cagataagta acgcttacaa acaagcgtca
      841 cagtttaaga acttgacgat tgagtttatg aggacttgtc gatgatagat atccaaaaac
      901 tgatatcttg gcttggcgtt gagggagcta aagctggctt ggataaaagt gaaatgacta
      961 atgccgagct aattgaatcc tttggtaatt tacttccaaa gaacccaagc aaattaaaac
     1021 gctccgatct cgttgaggag attattttag caacaaggag aatgacacat aaatcagttg
     1081 aagaactgat ggaaatgtca aaagaagatc tgtattcata tttccacgat cagaaatata
     1141 gcagaaaaga acttcttgat ttgttatata ctcttgaaat cagacctggg agctcagcaa
     1201 agaaaaatct aaccgagttc acaataagtg agataagtga tattggcatg tatcgtcgcg
     1261 tagcgaaagg gaatcatgca taaataaaag ccacctgtga ggtggctttt tataggataa
     1321 aaaaatgcca tttaatatag gcgatatagt ttacttaaag tcagaatcaa aagcgatgac
     1381 ggtcatcgga tatggatcgt ctcaaaataa cggttacata gatctagcta attgtgcttg
     1441 gctagataaa gacaaccgct attgccaaat actattcttg tttcaaacga tcgaaaaaag
     1501 aatcagttaa aaactggctt atcttcattg agcataccgg acgaacctat ttaccataac
     1561 atccgttgcc cgcaccgcag aaacgcgttc ggtgcgatca cggcagcaga caggtaaaaa
     1621 tggcaacaaa ccacccgaaa aactgccgcg atcgcacccg gtaaatttta accacatgca
     1681 tagctatgca gccatgtgaa tcacgcagga attgccagcc agagacagct gaaacggatt
     1741 tttttcatgc tttcggaagc gaagaagacg gggaccggag cgggaaaaca gaagttcagg
     1801 ggaatgagcg cgatctggca atagaggcaa aacacagcaa caaaagacac accagaatcg
     1861 cgcccgtatg cgttttaacg cgttcctgtg ttttcagcaa ggtctgactg aagcgcgttc
     1921 ccggtgcccc cgaaccaacc attatcccaa aaaatgcacc ggaaacgcgc tgacaacatt
     1981 ttagcctgtc tctgattacc atccaagcga agggccatcc tgtgtccatt cctgtatttc
     2041 cggctggcgc tcacgctcca gggataactc atgttcgcgc tcctgtatca gccgttcgtc
     2101 ccttatctcc tgttctcgct gtataactgg ctcaagcgtt ctgtccgctc gctcaagtgc
     2161 tgcacctgct gactcaactg catgacctgc tcgttcagca tcgcgttgtc ccgttgcgta
     2221 agcgaaaaca ttttctgcaa ttccacgaag gcgctctccc attcgctcag ccgctgcata
     2281 tagtcctgtt gcagttgctc taaggcgttc agcaaatgtc tttccagctc cgtcactctg
     2341 tgtcactccg tcagttgtac ccagtccttc tcctgatagg gaatcaccgt tgccgatttc
     2401 ccgtacggaa ggaccagaaa tttccttctc ccgtcctgca caaactccac gccccatgtc
     2461 ttcgcgttca gtttctgcaa tgtttcttcc tgtatcctga tttcttccag gttcgcctgt
     2521 atccgcccgc caagatacca gagcgtcccg ccactcacgg taaacaggaa aaggaccatc
     2581 cccagtaaca tcatgcccgt attccctgcc agctttaaca cgtccttcct gtgctgcatc
     2641 atcgcctctt tcaccccttc ccggtgtttt ttcagtgatt cctctgtcga agctgtgaac
     2701 agggctatag cgtctttgat tttcgtctcg tttgatgtca cagccttgct tacagatttt
     2761 tcgagcttgc tgaactcgtc gttcagcatt gtctctgtag attcggctct ctctttcagc
     2821 tttttctcga agtccgcgcc cgtctgtaaa agattgctca tacaatgctc ctttcagcct
     2881 gatattcttc cccccgttcg ggtctgcaat gctgatactg cttcggttgc gtcaccacct
     2941 gccccttcaa gccctgccgc tgtgagcgcc tgaatgacat cctgacggcc ttttatttct
     3001 ccggcacggt aaagagcctc aagaccccgt gtaatcgctc tctgcgagct cctgtttcgc
     3061 ttttggcaga ttatccggta gtgacaagcg tccgtctgtt ctccggtgcg ttcgggtcac
     3121 gcagcccgta atgatgatta accagcgtct gccaggcatt tatcctcggc ctgtccgcac
     3181 ggtcgtagta cggctggagg cgcttaccgc tctgtagttc catgttcgga atgacaaaat
     3241 tcagttcgag ccgcccctta tcctggtgtt ccacccagag aatgctgtac tggtcttttt
     3301 cgagaccggg cataagaaca cgctcaaagc tcgtcatcac tctttcgcgt tcacccggcg
     3361 gtaactcctt ctccgcgaac gacagaacgc ctgacgtgta tttcttcgaa aatggcgtgg
     3421 catcaatgag ttcccggatt tcttccgggt taccccgaag caccgttgcg ccttcgcggt
     3481 tacgctcccg ccccagcagg taatcgaccg ggccacttcc accgcctttt cccctggcat
     3541 gaaatttaac tatcatcccg tcccccctgt tccctgacag cctgccgcaa ctggcgcaat
     3601 tcaccctcga tggccatcag agcggccacc acatgaaccc ggtcaatcga agaccagtgg
     3661 ccgctgttca ccttccgggc tgtctggttc agattgttcc cgatggcagc cagatgccgc
     3721 agcaatggcg gcgatagtgt cggcagtttt cctgtgcgcg caaccggctc ccccagacag
     3781 acccgccgca tccattctgc cagtcgttta ccctcgcagc gttccagtaa ccgggcgtgc
     3841 tcctcatcgc taacccgtat cgtgagcatc ttctcgcgtt tcatcggtat cattccccca
     3901 taaacaaaat cccctattac acggagcctt aagaccatga ccaaacagga aaaaacagcc
     3961 cttaacatgg cccgctttat cagaagccag acgctgaccc tgctggaaaa actcaacgag
     4021 ctggacgcgg acgaacaggc agacatctgc gaatcacttc acgaccacgc cgacgaactc
     4081 taccgtagtt gcctcgcacg cttcggcgat gacggtgaaa gaacggggcg gagatttcct
     4141 ggaagatgcc aggaagatac ttaacaggga agcgataggg tcgcggcgaa gccgtttttc
     4201 cataggctcc gcccccctga caagcatcac gaaatctgac gctcaaatca gtggtggcga
     4261 aacccgacag gactataaag ataccaggcg tttccccctg gtggctccct cgtgcgctct
     4321 cctgttcctg cctttcggtt taccggtgtc attccgctgt tatggccgcg tttatctcat
     4381 tccacgcctg acactcagtt ccgggtaggc agttcgctcc aagctggact gtatgcacga
     4441 accccccgtt cagtccgact gctgcgcctg ttccggtaac tatcgacttg agtccaaccc
     4501 ggaaagacac gacaaagcgc cactggcagc agccatgagt aaaggggtgt acaagattta
     4561 ctgagtgaga gttcttgaag tatcagcctt agagaggcta aactggaata acagaatttg
     4621 gtttcagcgg tcttgtacac cctgttacca cggttcagaa gttccccaac ttactgaacc
     4681 ctcgaaaaaa ccgactcccc agtcggtttt tttcgtttga tggctaagag tacgctgacg
     4741 ttatactgaa cgtcaaggaa agcgttgacg ctgttccctc taccaaaaaa agagatttgt
     4801 aaggaataaa a
//
