LOCUS       CP122671                5128 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC4072 plasmid unnamed5, complete
            sequence.
ACCESSION   CP122671
VERSION     CP122671.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549649
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5128)
  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 5128)
  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                   :: 245x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:14:16
            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)                     :: 5,146
            CDSs (total)                      :: 5,021
            Genes (coding)                    :: 3,999
            CDSs (with protein)               :: 3,999
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 1,022
            CDSs (without protein)            :: 1,022
            Pseudo Genes (ambiguous residues) :: 0 of 1,022
            Pseudo Genes (frameshifted)       :: 859 of 1,022
            Pseudo Genes (incomplete)         :: 182 of 1,022
            Pseudo Genes (internal stop)      :: 45 of 1,022
            Pseudo Genes (multiple problems)  :: 62 of 1,022
            Pseudo Genes (short protein)      :: 4 of 1,022
            CRISPR Arrays                     :: 3
            ##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..5128
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC4072"
                     /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..192
                     /locus_tag="QDW68_25230"
     CDS             1..192
                     /locus_tag="QDW68_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="WHH75248.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            823..954
                     /locus_tag="QDW68_25235"
     CDS             823..954
                     /locus_tag="QDW68_25235"
                     /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="WHH75249.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKAPLAAAMSKGVYKIY"
                     /name="replication initiation protein"
     gene            1203..2087
                     /locus_tag="QDW68_25240"
     CDS             1203..2087
                     /locus_tag="QDW68_25240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505259.1"
                     /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="WHH75250.1"
                     /translation="MAVTVGFISEKGGVGKTTSCYHIAEGLSRFHEKRVLVIDADYQRG
                     GITGRFFPKLIENFGNQAPQGTTLFNKYQQLYSAAQQTTDIDIIKFNSGIDVIPADPRL
                     STVSTDKLPSTNNIRSNNAILLQHLKTISAVLSPIADNYDYILIDSHPEVSDVMRSIIY
                     ASDYCVSPVKLDRQSSIGVATVIGEINNVNEDIEMLRKALQVGDSYKDTVFAGAMGMMA
                     REYAEELKQTEQYEYNRLRQAGDIFKHYITEGDGLRVAAAERVSVYDVQISNAYKQASQ
                     FKNLTIEFMRTCR"
                     /name="ParA family protein"
     gene            2084..2485
                     /locus_tag="QDW68_25245"
     CDS             2084..2485
                     /locus_tag="QDW68_25245"
                     /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="WHH75251.1"
                     /translation="MIDIQKLISWLGVEGAKAGLDKSEMTNAELIESFGNLLPKNPSKL
                     KRSDLVEEIILATRRMTHKSVEELMEMSKEDLYSYFHDQKYSRKELLDLLYTLEIRPGS
                     SAKKNLTEFTISEISDIGMYRRVAKGNHA"
                     /name="hypothetical protein"
     gene            complement(3305..3538)
                     /locus_tag="QDW68_25250"
     CDS             complement(3305..3538)
                     /locus_tag="QDW68_25250"
                     /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="WHH75245.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3545..4063)
                     /locus_tag="QDW68_25255"
     CDS             complement(3545..4063)
                     /locus_tag="QDW68_25255"
                     /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="WHH75246.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            complement(4101..4532)
                     /locus_tag="QDW68_25260"
                     /pseudo=""
     CDS             complement(4101..4532)
                     /locus_tag="QDW68_25260"
                     /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(4741..5064)
                     /locus_tag="QDW68_25265"
     CDS             complement(4741..5064)
                     /locus_tag="QDW68_25265"
                     /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="WHH75247.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(288..461)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.571"
                     /coverage="100.0"
                     /evalue="1.23e-64"
     Typing          385..971
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.723"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(3202..4751)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtgactaaac aggaaaaaac cgcccttaac atggcccgct ttatcagaag ccagacatta
       61 acgctgctgg aaaagctcaa cgaactggac gcggatgaac aggcagacat ctgtgaatcg
      121 cttcacgacc acgccgatga gctttaccgc agctgcctcg cacgcttcgg ggatgacggt
      181 gaaaacctct gacacataca gctcccggag acggtcacag cttgtctgtg agcggatgcc
      241 gggagcagac aagcccgtca gggcgcgtca ggccgttgac cttgcgggtg tcggggcgca
      301 gccatgaccc agtcacgtag cgatagcgga gtgtatactg gcttactatg ttggcatgag
      361 tgcgggtatc aggaaagtgc ttcatgtggc aggagaaaaa aggcggcacc ggagcgtcag
      421 cagaatatgt gatacaggat atattccgct tcctcgctca ctgactcgct acgctcggtc
      481 gttcgactgc ggcgagcgga aatggcttac gaacggggcg gagatttcct ggaagatgcc
      541 aggaagatac ttaacaggga agcgataggg tcgcggcgaa gccgtttttc cataggctcc
      601 gcccccctga caagcatcac gaaatctgac gctcaaatca gtggtggcga aacccgacag
      661 gactataaag ataccaggcg tttccccctg gtggctccct cgtgcgctct cctgttcctg
      721 cctttcggtt taccggtgtc attccgctgt tatggccgcg tttatctcat tccacgcctg
      781 acactcagtt ccgggtaggc agttcgctcc aagctggact gtatgcacga accccccgtt
      841 cagtccgact gctgcgcctg ttccggtaac tatcgacttg agtccaaccc ggaaagacac
      901 gacaaagcgc cactggcagc agccatgagt aaaggggtgt acaagattta ctgagtgaga
      961 gttcttgaag tatcagcctt agagaggcta aactggaata acagaatttg gtttcagcgg
     1021 tcttgtacac cctgttacca cggttcagaa gttccccaac ttactgaacc ctcgaaaaaa
     1081 ccgactcccc agtcggtttt tttcgtttga tggctaagag tacgctgacg ttatactgaa
     1141 cgtcaaggaa agcgttgacg ctgttccctc taccaaaaaa aagagatttg taaggaataa
     1201 aaatggctgt gacagttggg tttattagtg agaaaggtgg ggttggtaaa acaacgtcct
     1261 gttatcacat tgccgaagga cttagtcgtt ttcatgaaaa acgtgtttta gttatagatg
     1321 cagattatca acgcgggggt ataactggaa gatttttccc taaactgatc gaaaactttg
     1381 gaaatcaagc accgcaagga acaacgttat ttaacaagta tcagcaatta tatagcgcgg
     1441 cacaacaaac gactgacata gacataatta aatttaatag tggtatcgat gtcattccag
     1501 ccgaccctcg cttatcaacc gtttcaactg ataagctacc tagtacaaac aatataagat
     1561 cgaacaatgc cattctttta cagcatttaa aaaccataag cgctgtatta tcacctattg
     1621 cagataatta tgactacata ttgattgatt cacaccccga agtttctgat gtcatgcgct
     1681 ctataatcta cgcatcagat tattgtgtat caccggtaaa actagacagg caatcatcta
     1741 ttggtgtggc cacggtcata ggtgagataa ataatgtaaa tgaagatatt gaaatgctaa
     1801 gaaaggcact gcaagtcggc gattcatata aggacacagt tttcgccgga gcaatgggaa
     1861 tgatggccag agaatatgca gaagaactga agcaaacaga gcaatatgaa tacaacaggc
     1921 ttcggcaagc aggtgacatc ttcaagcact acataacgga aggtgatggg ctaagagtag
     1981 ctgcagcaga gcgcgtttca gtgtatgatg tacagataag taacgcttac aaacaagcgt
     2041 cacagtttaa gaacttgacg attgagttta tgaggacttg tcgatgatag atatccaaaa
     2101 actgatatct tggcttggcg ttgagggagc taaagctggc ttggataaaa gtgaaatgac
     2161 taatgccgag ctaattgaat cctttggtaa tttacttcca aagaacccaa gcaaattaaa
     2221 acgctccgat ctcgttgagg agattatttt agcaacaagg agaatgacac ataaatcagt
     2281 tgaagaactg atggaaatgt caaaagaaga tctgtattca tatttccacg atcagaaata
     2341 tagcagaaaa gaacttcttg atttgttata tactcttgaa atcagacctg ggagctcagc
     2401 aaagaaaaat ctaaccgagt tcacaataag tgagataagt gatattggca tgtatcgtcg
     2461 cgtagcgaaa gggaatcatg cataaataaa agccacctgt gaggtggctt tttataggat
     2521 aaaaaaatgc catttaatat aggcgatata gtttacttaa agtcagaatc aaaagcgatg
     2581 acggtcatcg gatatggatc gtctcaaaat aacggttaca tagatctagc taattgtgct
     2641 tggctagata aagacaaccg ctattgccaa atactattct tgtttcaaac gatcgaaaaa
     2701 agaatcagtt aaaaactggc ttatcttcat tgagcatacc ggacgaacct atttaccata
     2761 acatccgttg cccgcaccgc agaaacgcgt tcggtgcgat cacggcagca gacaggtaaa
     2821 aatggcaaca aaccacccga aaaactgccg cgatcgcacc cggtaaattt taaccacatg
     2881 catagctatg cagccatgtg aatcacgcag gaattgccag ccagagacag ctgaaacgga
     2941 tttttttcat gctttcggaa gcgaagaaga cggggaccgg agcgggaaaa cagaagttca
     3001 ggggaatgag cgcgatctgg caatagaggc aaaacacagc aacaaaagac acaccagaat
     3061 cgcgcccgta tgcgttttaa cgcgttcctg tgttttcagc aaggtctgac tgaagcgcgt
     3121 tcccggtgcc cccgaaccaa ccattatccc aaaaaatgca ccggaaacgc gctgacaaca
     3181 ttttagcctg tctctgatta ccatccaagc gaagggccat cctgtgtcca ttcctgtatt
     3241 tccggctggc gctcacgctc cagggataac tcatgttcgc gctcctgtat cagccgttcg
     3301 tcccttatct cctgttctcg ctgtataact ggctcaagcg ttctgtccgc tcgctcaagt
     3361 gctgcacctg ctgactcaac tgcatgacct gctcgttcag catcgcgttg tcccgttgcg
     3421 taagcgaaaa cattttctgc aattccacga aggcgctctc ccattcgctc agccgctgca
     3481 tatagtcctg ttgcagttgc tctaaggcgt tcagcaaatg tctttccagc tccgtcactc
     3541 tgtgtcactc cgtcagttgt acccagtcct tctcctgata gggaatcacc gttgccgatt
     3601 tcccgtacgg aaggaccaga aatttccttc tcccgtcctg cacaaactcc acgccccatg
     3661 tcttcgcgtt cagtttctgc aatgtttctt cctgtatcct gatttcttcc aggttcgcct
     3721 gtatccgccc gccaagatac cagagcgtcc cgccactcac ggtaaacagg aaaaggacca
     3781 tccccagtaa catcatgccc gtattccctg ccagctttaa cacgtccttc ctgtgctgca
     3841 tcatcgcctc tttcacccct tcccggtgtt ttttcagtga ttcctctgtc gaagctgtga
     3901 acagggctat agcgtctttg attttcgtct cgtttgatgt cacagccttg cttacagatt
     3961 tttcgagctt gctgaactcg tcgttcagca ttgtctctgt agattcggct ctctctttca
     4021 gctttttctc gaactccgcg cccgtctgta aaagattgct catagaatgc tcctttcagt
     4081 ctgatattct tcccgccgtt cgggtctgca atgctgatac tgcttcgcgt caccctgacc
     4141 acttcaagcc ctgcctctgt gagcgcctga atcacatcct gacggccttt tatctccccg
     4201 acatgataaa gagcgtctat cccgcgtgtg acgctctctg caagcgcctg tttcgtttcc
     4261 ggcaggttat cagggagagt cagtatccgg cggttctccg gggcgttggg gtcatgcagc
     4321 ccgtaatggt gattaaccag cgtctgccag gcatcaattc tcggcctgtc tgcccggtcg
     4381 tagtacggct ggaggcgttt tccgctctgt agctccatgt tcggaatgac aaaattcagc
     4441 tcaagccgtc ccttgtcctg gtgctccacc cacaggatgc tgtactgatt tttttcgaga
     4501 ccgggcatca gtacacgctc aaagctcgcc atcacctttt cacgtcctcc cggcggcagc
     4561 tccttctccg cgaacgacag aacacctgac gtgtatttct tcgcaaatgg cgtggcatcg
     4621 atgagttccc ggacttcttc cggattaccc tgaagcaccg ttgccccttc ccggttacgc
     4681 tcccttccca gcaggtaatc aaccggacca ctgccaccgc cttttcccct ggcatgaaac
     4741 ttaactatca tcccgcgctc catgttccct gacgacctgc cgtaagctgc gcaactctct
     4801 ctcgatggcc atcagtgcgg ccaccacctg aacccggtca ccggaagacc actgcccgct
     4861 gttcaccttc ctcgccgtct gattcagatt attcccgatg gcagccagct ggcgcagtaa
     4921 cggcggcgcc agtgtcggca gcttcccgga acgggcaacc ggctcaccca gacagacccg
     4981 ccgcatccat accgccagct gtttaccctc acagcgttcc agtaaccgtg catgttcatc
     5041 atcagtaacc cgtatcgtga gcatcctctc gcgtttcatc ggtatcatta ccccatgaac
     5101 agaaatcccc ccttacacgg aggcatca
//
