LOCUS       NZ_CP038285             2679 bp    DNA     circular CON 13-JUN-2023
DEFINITION  Escherichia coli O157:H7 strain YB14-1 plasmid pYB14-2, complete
            sequence.
ACCESSION   NZ_CP038285
VERSION     NZ_CP038285.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN05360245
            Assembly: GCF_013167155.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O157:H7
  ORGANISM  Escherichia coli O157:H7
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2679)
  AUTHORS   Bono,J.L.
  TITLE     Comparison of complete closed STEC O157:H7 genomes
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2679)
  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                   :: 247x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/13/2023 03:01:12
            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)                     :: 5,686
            CDSs (total)                      :: 5,552
            Genes (coding)                    :: 5,244
            CDSs (with protein)               :: 5,244
            Genes (RNA)                       :: 134
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 104
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 308
            CDSs (without protein)            :: 308
            Pseudo Genes (ambiguous residues) :: 0 of 308
            Pseudo Genes (frameshifted)       :: 116 of 308
            Pseudo Genes (incomplete)         :: 167 of 308
            Pseudo Genes (internal stop)      :: 77 of 308
            Pseudo Genes (multiple problems)  :: 44 of 308
            Pseudo Genes (short protein)      :: 4 of 308
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP038285.1.
            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..2679
                     /organism="Escherichia coli O157:H7"
                     /mol_type="genomic DNA"
                     /strain="YB14-1"
                     /serotype="O157:H7"
                     /isolation_source="cattle feces"
                     /host="cattle"
                     /db_xref="taxon:83334"
                     /plasmid="pYB14-2"
                     /geo_loc_name="USA:Nebraska"
                     /collection_date="2002"
                     /collected_by="USMARC"
     gene            complement(827..1231)
                     /locus_tag="E4U79_RS27600"
                     /old_locus_tag="E4U79_28420"
     CDS             complement(827..1231)
                     /locus_tag="E4U79_RS27600"
                     /old_locus_tag="E4U79_28420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000014067.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000014067.1"
                     /translation="MSGGNNFKMSQDYEIAQPKKKMAYPILVEEWDFLIGKIESISDDE
                     NIYHTIGSIFLGVAGSALIAALTLDLPSDDGYMPRQILISWYVFWASLICGVLSMFFGR
                     KNKKINRTSAKDIVQQMRLIEKRYEQGSMD"
                     /name="hypothetical protein"
     gene            complement(1228..1500)
                     /locus_tag="E4U79_RS27605"
                     /old_locus_tag="E4U79_28425"
     CDS             complement(1228..1500)
                     /locus_tag="E4U79_RS27605"
                     /old_locus_tag="E4U79_28425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001286144.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001286144.1"
                     /translation="MSDVKSDQIIKYLSEKWGGSKCPLCKKGRWNVSDKIFELREFHEG
                     NVVIGAGPIVPIIPVTCDNCGNVVLVNAIISGCLSADNKQDGGSK"
                     /name="hypothetical protein"
     gene            complement(1859..2182)
                     /gene="mobA"
                     /locus_tag="E4U79_RS27610"
                     /old_locus_tag="E4U79_28430"
     CDS             complement(1859..2182)
                     /gene="mobA"
                     /locus_tag="E4U79_RS27610"
                     /old_locus_tag="E4U79_28430"
                     /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_137049497.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTVEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGNREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            2466..2660
                     /locus_tag="E4U79_RS27615"
                     /old_locus_tag="E4U79_28435"
     CDS             2466..2660
                     /locus_tag="E4U79_RS27615"
                     /old_locus_tag="E4U79_28435"
                     /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_001041622.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALNADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2192..2428)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.49e-121"
     Typing          16..520
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.553"
                     /coverage="95.0"
                     /evalue="2.2999999999999997e-156"
     Typing          complement(1863..2182)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.196"
                     /coverage="100.0"
                     /evalue="1.59e-61"
ORIGIN
        1 aacggcatag aggagcgtaa ggagaaaatg tcacataagg cgctcttccg cttcctcgct
       61 cactgactcg ctacgctcgg tcgttcgact gcggcgagcg gtgtcagctc actcaaaggc
      121 ggtaatacgg ttatccacag aatcggggga taaaaccgga aagaacatgt gagcaaaaga
      181 caaagactca gaagaagggc gcgcgggagg cgtttttcca taggctccgc ccccctgacg
      241 agcatcataa aaaccgacgc tcaagtcaga ggtggcgaaa cccgacagga ctataaagat
      301 accaggcgtt tccccctgga agctccctcg tgcgctctcc tgttcctgcc tttcggttta
      361 ccaatgtcat tccgcagtta tggccgcgtt tatctcattc cacgcctgac actcagttcc
      421 gggtaggcag ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgaccgc
      481 tgcgccttat ccggtaacta tcgacttgaa tccaacccgg aaagacacga cttatcgcca
      541 ctggcagcag ccactggtaa ccgaattaga ggagttagcc ttgaagtcat gcgcctgtta
      601 aggctaaact gaaagaacaa gttttggtga ctgcgctcct ccaagccagt tacctcggct
      661 caaagagttg gtagctctga gaaccttcga aaaaccacct tgccgggtgg ttttttcgtt
      721 tcatagacaa gagactacga cgacaagaca aggatctcaa gaagatcctt acattatgcc
      781 cccccccctt ggcacgccgt aacctcgcta aacgttcagc atccagttaa tccatactac
      841 cttgctcgta acgtttctct atcaatctca tttgttgcac aatatccttc gcagaagttc
      901 tattaatctt tttattcttt ctaccaaaaa acatagaaag cactccacaa ataaggcttg
      961 cccaaaatac gtaccatgaa attaatatct gccttggcat ataaccatca tctgatggca
     1021 aatctaaagt taatgctgct atcaatgccg agccagccac acctaaaaat atagaaccaa
     1081 tcgtatggta tatattttca tcatcactaa tactttctat tttccctatt aaaaaatccc
     1141 attcttcaac aagaataggg taagccattt tcttttttgg ttgagcaatt tcatagtcct
     1201 gagacatttt aaaattatta ccaccactca ctttgagcct ccatcttgct tattgtcagc
     1261 agataagcac cctgagataa tggcattaac aagaacaaca ttcccgcaat tatcacaagt
     1321 tacaggaata attgggacta tcggacctgc cccaataaca acattacctt catgaaattc
     1381 tcttagttca aaaattttgt cagaaacatt ccaacgccct tttttacaca agggacattt
     1441 gctccctccc cacttttcag acaaatattt aattatttga tctgacttaa catcactcat
     1501 attccctcca agcattcctt atactcatat atttattagc gaacaatcac atcactcaat
     1561 aatttattga tcaagtaact ttatagagta catccatatc tgttttgtgc gcaaaaaaac
     1621 ataaatataa aatcttacat ttaccataat accagtattg tacgcaccgc tgaaacgcgc
     1681 tgaacgcgat tctgacgcag acaccgcaaa aagagatgtt ttaccccggg aaaacaggaa
     1741 ggatgcgtca ggatcgtttt cagctcgctg catagctatg catgaaagcg aatggtgatc
     1801 actttgggag cttacggtgt tcataccgtc tgttttcgac agttttctct ccgggaagct
     1861 aatctgccat aagtctggat aacagggcac ggtgatactc cgtaatagcg atcagcacct
     1921 ccgcatactc cctgttcccg acacgcttgc cgtcgataaa gagttttttc tgtaacgccc
     1981 ccagtctcat aacttctttc agtacccgat catcagtcag tgagttaact ttcttaccga
     2041 gagctgccgc ccgtaaaaaa ccggaaacgg tcttgccgca ttcagcagcc ctttttctga
     2101 tttcctggtc ttcttctacc gtcaggcgaa cagggcgact gatagcccgc ctgcgcgtat
     2161 tacttccact tcgttttgtc ataaaacatg gctccgtatc tgacatgggt gtcggggcaa
     2221 agccctgacc agggcaattg taatagcgtg catgtatgcg cggtataaca attgcacatc
     2281 ctgtcctgtc agcaagctcg aattaccgac aaaggcacgg cagttttttg gcagtgacag
     2341 tgttgtctga cagaaatgcc cgtcaaaaag ccaagcggca gaatagcggc agcaaaacag
     2401 tcgaaaagtg gtacgcgata taatcacaca acgcagatga cagacagaac ggagaaaacg
     2461 aaaagatgaa caagcagcag caagccgtac tcaacatggc gggattcata aaaagtcaga
     2521 gcctgacgct gctcgaaaaa ctggacgcac tcaatgccga cgaacaggcc gccatgtgtg
     2581 agaaactgca cgaactcgca gaagaactcc agaacagcat acagacacgc tttgaagcgg
     2641 aaaatcttac cgggatataa cgctccagac aggatgcag
//
