LOCUS       NZ_CP038399             4634 bp    DNA     circular CON 13-JUN-2023
DEFINITION  Escherichia coli O157:H7 strain DEC4E plasmid pDEC4E-2, complete
            sequence.
ACCESSION   NZ_CP038399
VERSION     NZ_CP038399.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11229482
            Assembly: GCF_013168035.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O157:H7
  ORGANISM  Escherichia coli O157:H7
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4634)
  AUTHORS   Bono,J.L.
  TITLE     Comparison of complete closed STEC O157:H7 genomes
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4634)
  AUTHORS   Bono,J.L.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-MAR-2019) Meat Safety and Quality Research Unit,
            United State Department of Agriculture, State Spur 18D, P.O. Box
            166, Clay Center, NE 68933, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 217x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/13/2023 03:44:24
            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)                     :: 5,410
            CDSs (total)                      :: 5,283
            Genes (coding)                    :: 5,001
            CDSs (with protein)               :: 5,001
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 97
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 282
            CDSs (without protein)            :: 282
            Pseudo Genes (ambiguous residues) :: 0 of 282
            Pseudo Genes (frameshifted)       :: 110 of 282
            Pseudo Genes (incomplete)         :: 156 of 282
            Pseudo Genes (internal stop)      :: 66 of 282
            Pseudo Genes (multiple problems)  :: 43 of 282
            Pseudo Genes (short protein)      :: 4 of 282
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP038399.1.
            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..4634
                     /organism="Escherichia coli O157:H7"
                     /mol_type="genomic DNA"
                     /strain="DEC4E"
                     /serotype="O157:H7"
                     /host="Homo sapiens"
                     /db_xref="taxon:83334"
                     /plasmid="pDEC4E-2"
                     /geo_loc_name="Denmark"
                     /collection_date="1988"
     gene            complement(join(4630..4634,1..277))
                     /locus_tag="E3154_RS26215"
                     /old_locus_tag="E3154_26955"
     CDS             complement(join(4630..4634,1..277))
                     /locus_tag="E3154_RS26215"
                     /old_locus_tag="E3154_26955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000786945.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000786946.1"
                     /translation="MKNEDDYKTGWTTQTTNPATGKKCSGGAARNLRIYQAGGANSVRV
                     KAAIEGVQSIQPIIDVQQSQIEQQQVQIAMLTQSLSQAINELTKSRNK"
                     /name="hypothetical protein"
     gene            complement(287..544)
                     /locus_tag="E3154_RS26220"
                     /old_locus_tag="E3154_26960"
     CDS             complement(287..544)
                     /locus_tag="E3154_RS26220"
                     /old_locus_tag="E3154_26960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001508827.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001125013.1"
                     /translation="MPKKTSKPNDLSNTINNIKKEINSGFTELLNRVEALEASDAQHSM
                     AIRDLQIQARAARGDKRMDIARDFDLSEGRISQIVNAGRN"
                     /name="hypothetical protein"
     gene            1089..1799
                     /locus_tag="E3154_RS26225"
                     /old_locus_tag="E3154_26965"
     CDS             1089..1799
                     /locus_tag="E3154_RS26225"
                     /old_locus_tag="E3154_26965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000967646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_024165718.1"
                     /translation="MLYWKRMPSLWIGIKISEFNDLDTAKAIAALKIYLTFCLFCKESD
                     SGQRTVELTFSNLCEIASLSRSLVNEGLKILYAKELIKNLSTTVRKKIYTVDVLEKHDD
                     GWCKLPFKGIVGEDGKISAFQSMHNRYPFELLALQTYMYLLYARDNRNEYTLARKKTIC
                     KKLKCKLPELNKAITYLIHIGLLDRIVKKSIENKPLEMFHDSCYFYFRAGSNSALTYKR
                     KSEVLNLSEEDLPF"
                     /name="hypothetical protein"
     gene            complement(1910..2425)
                     /locus_tag="E3154_RS26230"
                     /old_locus_tag="E3154_26970"
     CDS             complement(1910..2425)
                     /locus_tag="E3154_RS26230"
                     /old_locus_tag="E3154_26970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000675352.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
                     /protein_id="WP_000675353.1"
                     /translation="MKFYTISSSYIKYLKDFDDKVPNSEDPTYNNPKAFIGIVLEIEGH
                     KYLAPLTSPKAWHANVKESSPAFFKLHENGVPDNQLGLINLKFMIPIIEAEVSLLDLDS
                     MPDTPYKRMLYKQLQFIRVNEDKISEKSKLLRNLALQGRMQGTCDFAVLEEKYQHFGKK
                     PEDMEIDD"
                     /name="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
     gene            complement(2480..2707)
                     /locus_tag="E3154_RS26235"
                     /old_locus_tag="E3154_26975"
     CDS             complement(2480..2707)
                     /locus_tag="E3154_RS26235"
                     /old_locus_tag="E3154_26975"
                     /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="WP_162775234.1"
                     /translation="MLPLSAARNLGDLLPLSAARNLGDLLPLSAARNLGDLLPLSAARN
                     SGDLLPLSAARNLGDLLPLSAARNLGHLLP"
                     /name="hypothetical protein"
     gene            complement(3595..3789)
                     /locus_tag="E3154_RS26240"
                     /old_locus_tag="E3154_26985"
     CDS             complement(3595..3789)
                     /locus_tag="E3154_RS26240"
                     /old_locus_tag="E3154_26985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041618.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQAAICEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            4073..4396
                     /gene="mobA"
                     /locus_tag="E3154_RS26245"
                     /old_locus_tag="E3154_26990"
     CDS             4073..4396
                     /gene="mobA"
                     /locus_tag="E3154_RS26245"
                     /old_locus_tag="E3154_26990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          3825..4064
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          complement(2803..3304)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.015"
                     /coverage="99.0"
                     /evalue="1.1e-104"
     Typing          4074..4393
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.1e-62"
ORIGIN
        1 tattcctgct ttttgttagc tcattgattg cctgagacaa agattgagtc agcattgcta
       61 tttgaacttg ctgttgctca atttgtgact gttgtacatc aatgattggc tgtattgact
      121 gcacaccctc gattgcagct ttaacccgca cggagtttgc tccgccagct tggtatattc
      181 ttaagtttcg ggctgcgcct ccagaacatt ttttccctgt tgccgggttt gttgtctgag
      241 tcgtccatcc tgttttgtag tcgtcttcat ttttcataag tctgccttag ttacgacccg
      301 cattaacgat ctggctaatt cgtccctcgc tgaggtcaaa gtctcttgct atatccatac
      361 gtttgtctcc gcgagcggct ctagcctgaa tttgtaaatc acgtatcgcc atgctgtgtt
      421 gtgcgtcact agcctctaag gcttctacgc gattaagtaa ctcagtaaaa ccggagttaa
      481 tttctttctt tatgttgttg atagtgttgc ttaaatcgtt tggttttgat gtttttttag
      541 gcatggcata tttctctata ctcggcggct aagtccgcta aagattttta gttttgctaa
      601 agttgtaagg tagggattat tgctcctttt ggcaaggtaa atttaatgag ataaagaaat
      661 ttagtgcttt atgcagggtg gcttgcaagg cacaacgctt tgtttgttct gatctaaagt
      721 cctaatgtga aaacatttaa cgtaactaaa aatgcatcag cactgcattt acagttcacc
      781 atgaaccata atatgatttc taagaatacc aaaagcaaaa taaaatctct tatataacat
      841 atagatacct ttcttttgcc ttattttttc tttctagata gatttttgtg aaggcgttac
      901 aacgccttca cagcctgaga taatcaaaaa aacaaagcta tcaggaggga taaaaaatgt
      961 ttgagaaagg tgtgtttttg gctgaaaggc ttgcgaaggt cgcagtggtg ctaactaatc
     1021 tggtgctatc tctgtctgta ttggggttgg tctatttcat ttttcaaatt ctgggaatga
     1081 ggtgatttat gctgtactgg aaaagaatgc cttcactatg gataggtatc aaaatatctg
     1141 aattcaacga tcttgataca gcaaaagcca tcgccgcgtt aaagatttat ttaacatttt
     1201 gccttttctg caaagagtca gattcaggac agagaactgt tgagctaact tttagtaacc
     1261 tatgtgagat agcatcatta agccgatcgt tagttaacga agggcttaaa attctttatg
     1321 caaaagagtt gataaaaaat ttatcaacga cagtacgtaa aaaaatttat accgtagatg
     1381 tattagagaa gcatgatgat ggttggtgta agcttccctt taaaggaatt gtaggtgaag
     1441 atggaaaaat aagtgcattt caatccatgc acaacagata tccatttgag ttgctagctt
     1501 tacaaaccta catgtacctt ctttatgctc gtgataatag aaatgagtat actcttgcta
     1561 ggaaaaaaac aatatgtaaa aaactgaaat gcaaactacc tgaactaaat aaagccatta
     1621 cctatcttat tcatattggt ttacttgata ggattgttaa aaaatcaata gaaaacaagc
     1681 cgttggaaat gtttcatgat tcatgttact tctactttag agcgggaagt aacagcgctc
     1741 tcacttacaa aaggaaatca gaggtgctta atctttcaga ggaggacttg cctttttgat
     1801 tgcttctcga aatcaaaatt agaatatttt attcttatat tggatgagag caaaaaaata
     1861 ggtccaaaac cgcttgattt tggaccttca attccataaa aaagaatggt taatcgtcta
     1921 tttccatgtc ttcaggtttt ttaccgaaat gttgatattt ttcttctaat acggcaaagt
     1981 cgcatgttcc ttgcattctg ccttgcaagg caaggtttct taatagtttt gatttttcag
     2041 atattttatc ttcatttaca cgaataaatt gtaactgttt atatagcatt cttttgtaag
     2101 gcgtatcagg catgctatcc agatcaagta aagacacttc agcttcgatt attggaatca
     2161 taaatttcag attaatcaat ccaagctgat tgtcagggac accgttttca tgaagtttga
     2221 agaaggcggg tgatgactct tttacattag catgccatgc ttttggcgac gttaaaggtg
     2281 ctaaatattt atgtccttca atctctagta ctatgccaat gaaagcctta ggattgttgt
     2341 atgtaggatc ttcgctattg ggaactttgt catcaaagtc cttcaggtat tttatgtaac
     2401 tgcttgatat tgtgtaaaat ttcatttttt tctcgtaaaa aaggcgactg tgtatagtcg
     2461 ccttttttac tttattactt taaggtagta aatgacctaa atttctagct gcacttaaag
     2521 gtagcaaatc acctaaattt ctagctgcac ttaaaggtag caaatcacct gaatttctag
     2581 ctgcacttaa aggtagcaaa tcacctaaat ttctagctgc acttaaaggt agcaaatcac
     2641 ctaaatttct agctgcactt aaaggtagca aatcacctaa atttctagct gcacttaaag
     2701 gtagcaaatc accttgaact aagtatacat gatcttcgct tgggcttaca actaggtgct
     2761 tagcatggga tgttcagtca aatgacggca ctaatcaaaa ggatcttctt gagatcatct
     2821 ttttctgcgc gtaatctctt ggtctgaaaa cggaaaaacc acccggcaag gtggtttttt
     2881 cgaaggttca gtaaaccggc aagtttctga accgtggtaa ctggctttcg cagagcacag
     2941 caaccaaatc tgtccttcca gtgtagccgt actgaggcgc acacttcaag agcaacctcg
     3001 tgtttagcta acaaatcatc tgcgaaccaa gttaccaatg gctaccgcca ctggcgattt
     3061 ttcgtgtctg ttccgggttg gactcaagat gatagttacc gggacaacgt ggtagtcggg
     3121 ctgaacgggg ggttcttgca cacagcccag cttggagcga actgtctaaa cggaacggga
     3181 cgtggtgatt taggtaaagc ttccaccaca acacggatgc cgcaggacgg gaacaggaga
     3241 gcgcaagagg gagccgccag ggggaaacgc ctggtatctt taagtcctgt cgggtttcgc
     3301 cacctctgac ttgagcgtcg atttttgtga tgctcgtcag gggggcggag cctatggaaa
     3361 aacgcctgcg gcgctggctt cttccggtgc tttgcttttt gctcacatgt tctttccggc
     3421 tttatcccct gattctgtgg ataaccgtat taccgctttt gagtgagctg acaccgctcg
     3481 ccgcagtcga acgaccgagc gtagcgagtc agtgagcgag gaagcggaag agcgccttat
     3541 gtgacatttt ctccttacgc tcctctatgc cgttctgcat cctgtccgga tgcgttatat
     3601 cccggtgcga ttttccgctt caaagcgtgt ctgtatgctg ttctgaagtt cttccgcgag
     3661 ttcgtgcagc ttctcacata tggcggcctg ttcgtcagca tcgagtgcgt ccagtttttc
     3721 gagcagcgtc aggctctggc tttttatgaa tcctgccatg ttgagtacgg cttgctgctg
     3781 cttgttcatc ttttcgtttt ctccgttctg tctgtcatct gcgttgtgtg attatatcgc
     3841 gtaccacttt tcgactgttt taccgccggt attctgccgt ctgacgcttt gacgggtatt
     3901 tctgcctgac aatactgtca ctgccaaaaa actgccgtgt ctttgtcggt aattcgaact
     3961 tgctgacagg acaggatgtg taattgttat accgcgcatg catgcacgct attacaatta
     4021 ccctggtcag ggctttgccc cgacacccat gtcagatacg gagccatgtt ttatgacaaa
     4081 aagaagtgga agtaatacgc gcaggcgggc tatcagtcgc cctgttcgtc tgacggcaga
     4141 agaagaccag gaaatcagaa aaagggctgc tgaatgcggc aagaccgttt ccggtttttt
     4201 acgggcggca gctctcggta agaaagttaa ctcactgact gatgatcggg tactgaaaga
     4261 agttatgaga ctgggggcgt tacagaaaaa actctttatc gacggcaagc gtgtcgggga
     4321 cagggagtat gcggaggtgc tgatcgctat tacggagtat caccgtgccc tgttatccag
     4381 gcttatggca gattagcttc ccggagagaa aactgtcgaa aacagacggt atgaacaccg
     4441 taagctccca aagtgatcac cattcgcttt catgcatagc tatgcagcga gctgaaaacg
     4501 atcctgacgc atccttcctg ttttcccggg gtaaaacatc tctttttgcg gtgtctgcgt
     4561 cagaatcgcg ttcagcgcgt ttctgcggtg cgggtaacgg atgttatggt aaataacatc
     4621 cgttatagcc tatt
//
