LOCUS       CP122793                5281 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1735 plasmid unnamed1, complete
            sequence.
ACCESSION   CP122793
VERSION     CP122793.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549612
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5281)
  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 5281)
  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                   :: 162x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:20:41
            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)                     :: 5,000
            CDSs (total)                      :: 4,883
            Genes (coding)                    :: 3,993
            CDSs (with protein)               :: 3,993
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 890
            CDSs (without protein)            :: 890
            Pseudo Genes (ambiguous residues) :: 0 of 890
            Pseudo Genes (frameshifted)       :: 684 of 890
            Pseudo Genes (incomplete)         :: 222 of 890
            Pseudo Genes (internal stop)      :: 61 of 890
            Pseudo Genes (multiple problems)  :: 72 of 890
            Pseudo Genes (short protein)      :: 3 of 890
            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..5281
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1735"
                     /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(4626..5281,1)
                     /locus_tag="QDX85_23045"
     CDS             join(4626..5281,1)
                     /locus_tag="QDX85_23045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001193550.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="prepilin peptidase"
                     /protein_id="WHG62786.1"
                     /translation="MQTIVGISLSPVYILPLMFTFSIIGRTLLFRVRYFLSDTGHLWYK
                     THPAVLSGIWLYSIAVALIILSSSPLLYRIHAVLILSFILQMAVTDALTGLLPGTFTRR
                     FLIAGMLSQITTDIWWFRTTEFATAAIVLFCLHKLVNRHRLNIGTGDLWLIAGITAWSG
                     LYNAIWCVLLGTGGFVLWHSTWCIKGHKEGPLGPWLCFGHVLLLLDNLYQPLWVI"
                     /name="prepilin peptidase"
     gene            1..1293
                     /locus_tag="QDX85_23050"
     CDS             1..1293
                     /locus_tag="QDX85_23050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012565250.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="shufflon system plasmid conjugative transfer
                     pilus tip adhesin PilV"
                     /protein_id="WHG62787.1"
                     /translation="MKKYDRGWASLETGAALLIVMLLIAWGAGIWQDYIQTKGWQTEAR
                     LVSNWTSAARSYIGKNYTTLQGSSTTTTPAVITTTMLKNTGFLSSGFTETNSEGQRLQA
                     YVVRNAQNPELLQAMVVSSGGTPYPVKALIQMAKDITTGLGGYIQDGKTATGALRSWSV
                     ALSNYDAKSGNGHIAVLLSTDELSGAAEDTDRLYRFQVNGRPDLNKMHTAIDMGSNNLN
                     NVGAVNAQTGNFSGNVNGVNGTFSGQVKGNSGNFDVNVTAGGDIRSNNGWLITRNSKGW
                     LNETHGGGFYMSDGSWVRSVNNKGIYTGGQVKGGTVRADGRLYTGEYLQLERTAVAGAS
                     CSPNGLVGRDNTGAILSCQSGTWGTIGGKLKVTQLSTTGYLGQFDFCAIARMGNAEDAH
                     YCQVVESPAGSRKWYKYEHKTGCIASCVTLN"
                     /name="shufflon system plasmid conjugative transfer pilus
                     tip adhesin PilV"
     gene            complement(1290..1538)
                     /locus_tag="QDX85_23055"
     CDS             complement(1290..1538)
                     /locus_tag="QDX85_23055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001349157.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHG62788.1"
                     /translation="MFIYASGGNGGSAGGVCANTSRLQGYVGGTLIGVNASNNPAYGKT
                     AFISFAVPAGTSYQITSYPTENTSCGVRVFSVFGYQT"
                     /name="hypothetical protein"
     gene            1672..1911
                     /locus_tag="QDX85_23060"
                     /pseudo=""
     CDS             1672..1911
                     /locus_tag="QDX85_23060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001566573.1"
                     /note="internal stop; incomplete; partial on complete
                     genome; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(2605..3573)
                     /locus_tag="QDX85_23065"
                     /pseudo=""
     CDS             complement(2605..3573)
                     /locus_tag="QDX85_23065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_076611102.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology.
                     GO_function: GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS5 family transposase"
                     /name="IS5 family transposase"
     gene            3760..4071
                     /locus_tag="QDX85_23070"
     CDS             3760..4071
                     /locus_tag="QDX85_23070"
                     /inference="COORDINATES: protein motif:HMM:NF020384.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type 4 pilus major pilin"
                     /protein_id="WHG62784.1"
                     /translation="MTVQGDKTSGTATLYNAWGGAVTVAPASTSGFNNGFTVTYDKVPQ
                     DACIQIATRISKTGLTNGITLNSTAHSDGKVTTEEASTQCKADNGSTGTNKLIFTING"
                     /name="type 4 pilus major pilin"
     gene            4081..4641
                     /locus_tag="QDX85_23075"
     CDS             4081..4641
                     /locus_tag="QDX85_23075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001774171.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="lytic transglycosylase domain-containing protein"
                     /protein_id="WHG62785.1"
                     /translation="MSGGTVPLRLISLILLFSLIPPARASYVAPKQIWTNKWDNCFAAA
                     GARYQIEPLLLKAISAGESSLRPGAININKDKKTGKASSTDYGLMQINSTHIPKLINMG
                     VIKKSEDLITKPCLNIHIGSWILARHFQICGVSWNCLGSYNAGFRKDRHETREQYANKI
                     WRIYRDMKGICLPGQGGRQCRQS"
                     /name="lytic transglycosylase domain-containing protein"
ORIGIN
        1 atgaaaaaat atgaccgagg ctgggcatcg ctggaaactg gcgcggcttt actgattgtt
       61 atgctcctga ttgcctgggg agcgggcata tggcaggact atattcaaac aaaaggatgg
      121 caaactgaag cacgtcttgt cagcaactgg accagtgcgg cccgctctta tatagggaaa
      181 aactacacga ctctccaggg cagtagtacc acaacaactc ctgccgttat cacgacaacc
      241 atgctgaaaa ataccggctt tttgtccagc gggtttactg agacaaacag cgaggggcag
      301 cggttacagg catatgtggt tcgaaacgcc caaaaccctg aattactaca ggcaatggtt
      361 gtatccagtg gtggcacacc ttatccagtg aaagcactta tccagatggc taaggatatt
      421 accactggtc ttggtggata tatccaggac ggcaaaacag ccacaggtgc attacgttcc
      481 tggtcagtag ctttaagtaa ttatgatgct aaaagcggta acgggcatat tgccgtattg
      541 ttatcgacag atgaacttag tggtgcagct gaggacactg atcgtcttta cagattccag
      601 gtcaatggtc gccctgactt aaacaaaatg cacacggcca ttgatatggg atcaaataac
      661 ctgaataacg ttggggcagt aaatgcccag acaggtaatt tcagcggcaa tgtgaatggt
      721 gtaaatggca ctttcagcgg tcaggtaaaa ggcaatagcg gaaactttga cgtaaatgtc
      781 accgctggcg gtgatatcag aagtaataat ggttggttaa ttactcgtaa cagtaaaggc
      841 tggctcaatg aaactcacgg tggcggattt tatatgtccg atggatcatg ggttcgaagt
      901 gtaaacaaca agggcatcta taccggcggt caggtgaaag gcggtactgt tcgggctgat
      961 ggtcgccttt atactggtga atacttacaa ctggaaagaa ctgccgttgc tggcgcatca
     1021 tgttcgccta acggccttgt aggccgcgat aatacagggg caatactttc gtgccaatcc
     1081 ggtacgtggg gaacaatagg tggaaaactc aaagttactc agctttccac cacaggttat
     1141 ctggggcaat tcgacttctg tgccattgcc agaatgggca acgcagagga tgcccactac
     1201 tgccaggtag ttgagagccc agcaggttca cgcaaatggt acaaatacga gcataagaca
     1261 ggttgtattg cgtcgtgtgt aacgctcaat taagtttgat atccaaatac tgaaaatacc
     1321 ctgacaccac atgatgtatt ttctgttgga taggatgtta tctgatagga agtacctgca
     1381 ggtacagcaa agctgataaa ggctgttttt ccatatgcag ggttattgct ggcattcacg
     1441 ccaattagcg tcccaccaac atatccctgc agtcgggatg tatttgcaca tacacctccg
     1501 gcagatcctc cattacctcc agatgcataa ataaacaatg tactgccccc tgaattccgc
     1561 cctgagaatg aacctctatg tgaacctaag tttgtgtaag aaccattgag cgaaccagaa
     1621 gtcttccgca gcatcggatt ggcaccggcc tacgtgccaa tccgagcact gaaatcatca
     1681 tcagcgtcga tatggacgaa tataaaaaca tttacgttat atcccaaaaa cacacaggtc
     1741 ttagggaggt ttaaactgtg aattaacacc tatcgcattg acgggcgtga aatggcagaa
     1801 acagaagtcg ttcctattga catgcctgac tctaacggcg agatgacttg gcaagccaaa
     1861 aactacacac agtattcgtc ctactttacg aagattactt gcttgaaata gcttattggc
     1921 aaatggcata tacagttatt gaaccattct gatcttcggc tgtatcgcac gcagccgacc
     1981 atgagttatt ggctgatggg aatgacctgg taagccatat gtaaccagtt cgtgaggtgc
     2041 atattccgcc gccacctgta acacgttttc cagttggaca ggtagctgtt gctccaggaa
     2101 agcgccaacc tgtggcctgt gctgtagcaa tttgaagctc accagatcct atctttttcc
     2161 ggtgcatcgg actggcactg gcctacgtgc caatccgtac tccgaggcgc tcctaaaatt
     2221 caattcacaa cgcagaccta taacatagct aaaaacactc gtaatttaag gctcggggtc
     2281 cccgctattg ctcatggact tacctgaatg gctcaccctt tggtggtttt caacaggtat
     2341 attccgacca aaacaacgtt tggtatgtga gtaattatgc ttggggaaat tatgagtctg
     2401 gtgggaccat atcagtcaca tgcctcaatc ttcctggtgc tggagcttaa ttaaaggggc
     2461 aacagtaggc atcgacatgt tcctcatcaa caccatcacc aataccgtac atgcgtgttc
     2521 cagtcataat gtatccagtc ggacattgaa tcggcttgta atagatcgaa ccaccactct
     2581 taccgccgat aaagtgattc attgctacgg atgatttgta ccaattacat gctgagtaat
     2641 taattttatt accccctgac caccgatagc ctctgcaacc tgaccatcgt agtcacgcag
     2701 cgtcagtgaa ccctcgaaca gctgttttac ccagtacatc gccgtttccg ctatcgtgag
     2761 cgacggttgt aatctgttgt ccatttccac cgcgcattac tcccggtcat ttgctgatta
     2821 gccactgcac ggttacggtc tgcatattca ccgggccagt aacccgcacc ttttcgggga
     2881 gggataagcg cgctgatttt cttacgccgc agttcatcgt gacagagccg ggtgtcgtaa
     2941 gcgccgtctg ccgatgctac cctgattttt ctgtgcgtct gtcggataag actccgggaa
     3001 ggcttctgag taagtcacat tgttcagcga caggtctgca cagatgattt catgtgtgct
     3061 gctgtcaact gccagatgca actttcgcca tatacggcgg cgttcctggc catgtttttt
     3121 gactttccac tcgccttcac cgaagacctt cagcccggtg gaatcaatta ccaggtgtgc
     3181 gatttcaccc ccgggtggag cgttttggaa actgacatta accgactttg cccgcctgct
     3241 gagcacagct gtaatcgggg cagcgtagcg gaacgttcat cagagaaaaa tggaatcaat
     3301 aaagccctgc gcagcgcgca gggtcagcct gaatacgcgt ttaatgacca gcacagtcgt
     3361 gatggcaagg tcagaatagc gctgaggtct gcctcgtgaa gaaggtgttg ctgactcata
     3421 ccaggcctga atagcttcat catccagcca gaaagttatg gagccacggt tgatgagggc
     3481 tttattgtag gtgggccagt tggtgatttt gaacttttgc tttgccacgg aacggtctgc
     3541 gttgtcggga agatacgtga tctgatcctt caactcagca aaagttcgat ttattcaaca
     3601 aagcccgtac aagaaccaat gtggcaactg aaaccgcaaa tatacaaaca attatcacaa
     3661 gtgcccagag cctgctaaaa ggtagcgatg gatatacatt taccagcagt gccaaaatga
     3721 cagatcgttc tcattcagat gggggccgtt ccctctggga tgacagtaca gggcgacaaa
     3781 acatctggta cagcaacgct ctataacgca tggggcggtg ctgtaactgt tgccccggct
     3841 tcaacatcag ggttcaacaa cggttttacc gttacctatg ataaagtccc acaggatgcc
     3901 tgtatccaga ttgccacacg gatcagtaaa actggtttaa ctaacggcat taccctgaac
     3961 agtactgctc acagtgatgg aaaagtcact actgaagaag ccagtacgca atgcaaggca
     4021 gataatggca gcactggtac aaacaaactt atcttcacca tcaatggtta aggagtttta
     4081 atgtcagggg gtacagtacc cctcagactt atttcattaa tcctgctttt ttctcttatt
     4141 ccacccgccc gagcttcata cgtagccccc aaacagatct ggaccaacaa gtgggacaat
     4201 tgctttgccg ctgccggcgc gcgctatcaa attgaaccat tattattgaa ggctatttct
     4261 gccggggaat cttcgttgag gccgggcgca attaatataa ataaggacaa aaaaacaggt
     4321 aaagccagta gcacggatta tgggttgatg caaataaact caacccatat tccaaagctg
     4381 ataaatatgg gcgtaataaa aaagtctgag gatttaatca ccaaaccatg ccttaatatc
     4441 catataggaa gctggatact ggcaagacat tttcagatat gtggcgtcag ctggaattgc
     4501 cttgggtcat acaatgccgg attccgtaag gacagacatg aaacaagaga gcaatatgcc
     4561 aataaaatat ggagaattta tcgtgacatg aaagggatat gtcttcccgg acagggaggc
     4621 aggcaatgca gacaatcgta ggcataagtc tatcccctgt ttatatactg ccattgatgt
     4681 tcacattttc cattattgga cgaactctgc tattcagagt tcgttatttt ttatctgata
     4741 cgggacatct ctggtataag acacaccctg ctgttctgtc aggaatatgg ctatacagta
     4801 tagctgtggc gttaattatt ttatcatcat caccactgct ctaccgtatt catgctgtcc
     4861 ttattctttc gttcatactg caaatggcgg taacggatgc actgacaggt ttattaccag
     4921 gaacattcac ccggcgtttt ttaattgcag gaatgctatc acaaatcacg actgatatat
     4981 ggtggttccg tacaacagaa tttgccactg ctgcaattgt cttattctgc cttcataaat
     5041 tagttaaccg ccatcgtctt aatattggca ctggagacct gtggcttatt gcaggtatta
     5101 ccgcatggtc agggttatat aacgccatat ggtgtgtgtt gctgggcaca ggaggatttg
     5161 tcttatggca ttcaacatgg tgcataaaag ggcataaaga aggccctctg ggtccatggc
     5221 tatgttttgg ccatgtcctt ttgctgctgg ataatcttta tcaaccacta tgggtaatct
     5281 g
//
