LOCUS       CP051828                3306 bp    DNA     circular BCT 08-FEB-2021
DEFINITION  Escherichia coli O157:H7 strain FLT_1999G plasmid pFLT_1999G-2,
            complete sequence.
ACCESSION   CP051828
VERSION     CP051828.1
DBLINK      BioProject: PRJNA627032
            BioSample: SAMN14648853
KEYWORDS    .
SOURCE      Escherichia coli O157:H7
  ORGANISM  Escherichia coli O157:H7
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3306)
  AUTHORS   Bono,J.L. and Weinroth,M.D.
  TITLE     USMARC Feedlot Long-term E. coli O157:H7 evaluation
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3306)
  AUTHORS   Bono,J.L. and Weinroth,M.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-APR-2020) 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. 4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 123x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/21/2020 18:52:01
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,556
            CDSs (total)                      :: 5,424
            Genes (coding)                    :: 5,207
            CDSs (with protein)               :: 5,207
            Genes (RNA)                       :: 132
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 102
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 217
            CDSs (without protein)            :: 217
            Pseudo Genes (ambiguous residues) :: 0 of 217
            Pseudo Genes (frameshifted)       :: 97 of 217
            Pseudo Genes (incomplete)         :: 90 of 217
            Pseudo Genes (internal stop)      :: 60 of 217
            Pseudo Genes (multiple problems)  :: 23 of 217
            CRISPR Arrays                     :: 1
            ##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..3306
                     /organism="Escherichia coli O157:H7"
                     /mol_type="genomic DNA"
                     /strain="FLT_1999G"
                     /serotype="O157:H7"
                     /isolation_source="feces"
                     /host="cattle"
                     /db_xref="taxon:83334"
                     /plasmid="pFLT_1999G-2"
                     /geo_loc_name="USA:Nebraska"
                     /lat_lon="40.524829 N 98.140806 W"
                     /collection_date="1999"
                     /collected_by="USMARC"
     gene            join(2349..3306,1..83)
                     /gene="lsoA"
                     /locus_tag="HH259_27275"
     CDS             join(2349..3306,1..83)
                     /gene="lsoA"
                     /locus_tag="HH259_27275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052606.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system mRNA
                     endoribonuclease LsoA"
                     /protein_id="QRI32181.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HQETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     gene            80..460
                     /gene="lsoB"
                     /locus_tag="HH259_27280"
     CDS             80..460
                     /gene="lsoB"
                     /locus_tag="HH259_27280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052605.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system antitoxin LsoB"
                     /protein_id="QRI32177.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     gene            complement(695..1018)
                     /locus_tag="HH259_27285"
     CDS             complement(695..1018)
                     /locus_tag="HH259_27285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="QRI32178.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            1290..1484
                     /locus_tag="HH259_27290"
     CDS             1290..1484
                     /locus_tag="HH259_27290"
                     /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="QRI32179.1"
                     /translation="MNKQQQTALNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1534..1767)
                     /locus_tag="HH259_27295"
                     /pseudo=""
     CDS             complement(1534..1767)
                     /locus_tag="HH259_27295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015675076.1"
                     /note="internal stop; 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            1672..2043
                     /locus_tag="HH259_27300"
     CDS             1672..2043
                     /locus_tag="HH259_27300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011898200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QRI32180.1"
                     /translation="MSKKQSTGRSQHRRRFSIGSAPLTSITKIDAQARGGETRQDYKDT
                     RRFPPEAPSCALLFRPCHLPDTCPPFSLREAWRFLIAHAVGISVRCRSFAPSWAVCTNP
                     PFSPTAAPYPVTIVLSPTR"
                     /name="hypothetical protein"
     Typing          complement(1028..1253)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          1514..2043
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(699..1018)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="4.0199999999999997e-60"
ORIGIN
        1 caattaacaa attagaatca atcgcaatca tcgataccgt ttgccaatta atagatggtg
       61 gcgtagctag gttgaaatta tgaaaaaaga taaaaaatat caaatagaag caataaaaaa
      121 taaagataaa actttattta ttgtctatgc tactgatatt tatagcccga gcgaattttt
      181 ctcaaaaatc gaatccgact tgaagaaaaa gaaaagcaag ggtgatgttt tttttgattt
      241 aataattcct aacggtggaa aaaaagatcg ttacgtctat acgtcattta atggcgagaa
      301 gttttcaagt tacacattaa acaaagttac gaaaactgat gaatataatg atttatctga
      361 gctctcggct tcgttcttta aaaaaaactt tgataagatc aacgtaaacc ttctatccaa
      421 agccacatca tttgctttga aaaaaggcat tccaatataa tatcaagcca gaagacattt
      481 accataacgt ctcattacgc gcaccgccaa aacgcgctga acgcgattct gacgcagaca
      541 ccgcaaaaag agatgttttc cccggggtaa accggaaaaa tgcgtcagga tcgctttcag
      601 ctcactgcat agctatgcat gaaagtgaat ggcgatcggt ttgggggctt acggcgttca
      661 taccgtctgt tttcgacagt ttctctccgg gaagctaatc tgccataagc ctggataaca
      721 gggcacggtg atactccgta atagcgatca gcacctccgc atactctctg tccccgacac
      781 gcttgccgtc gataaagagt tttttctgca acgcccccag tcgcataact tctttcagca
      841 cccggtcatc agtcagtgag ttaactttct taccgagagc tgccgcccgt aaaaaaccag
      901 aaacggtctt gccgcattca gcagcccttt ttctgatttc ctggtcttct tctgccgtca
      961 gacgaacagg gcgactgata gcccgcctgc gcgtattact tccacttcgt tttgtcataa
     1021 aacatggctc cgtatctgac atggggtgtc ggggcgaagc cctgaccagg gtaattgtaa
     1081 tagcgtgcat gtatgcgcgg tataacaatt gcacatcctg tcctgtctgc aagttcgaat
     1141 taccaacaaa gcactgctgt tttttggcag tgacagtgtt gtctgactga aatgtccgtc
     1201 ggcagaatac cggcggtaag acggtcgaaa agtggtgcgc gatataatca cacgacgcag
     1261 atgacagaca gaacggagaa aacagaaaga tgaacaagca gcagcaaact gcactcaaca
     1321 tggcgggatt cataaaaagc cagagcctga cgctgctcga aaaactggac gcactcgatg
     1381 ctgacgagca ggccaccatg tgtgagaagc tgcacgaact cgcagaagaa ctccagaaca
     1441 gcatacagac acgctttgaa gtagaaaata gcacagagat ataacgctca gggcaggatg
     1501 ccgaacggca caacagagcg taaggagaaa atgtcacata aggcgctctt ccgcttcctc
     1561 gctcactgac tcgctacgct cggtcgttcg actgcggcga gcggtgtcag ctcactcaaa
     1621 ggcggtaata cggttatcca cagaatcagg ggataaagcc ggaaagaaca tgtgagcaaa
     1681 aagcaaagca ccggaagaag ccagcaccgc aggcgttttt ccataggctc cgcccccctg
     1741 acgagcatca caaaaatcga cgctcaagcc agaggtggcg aaacccgaca ggactataaa
     1801 gataccaggc gtttcccccc ggaagctccc tcgtgcgctc tcctgttccg accctgccac
     1861 ttaccggata cctgtccgcc tttctccctt cgggaagcgt ggcgctttct catagctcac
     1921 gctgttggta tctcagttcg gtgtaggtcg ttcgctccaa gctgggctgt gtgcacgaac
     1981 cccccgttca gcccgaccgc tgcgccttat ccggtaacta tcgtcttgag tccaacccgg
     2041 taagacacga cttatcgcca ctggcagcag ccattggtaa ctgatttaga ggagtttgtc
     2101 ttgaagttat gcacctgtta aggctaaact gaaagaacag attttggtga ctgcgctcct
     2161 ccaagccagt taccttggtt caaagagttg gtagctcagc gaaccttgag aaaaccaccg
     2221 ttggtagcgg tggtttttct ttatttatga gatgatgaat caatcggtct atcaagtcaa
     2281 cgaacagcta ttccgttgac aaaaaaacaa gatctgtaca tattcaaaaa aaacaacgga
     2341 ttgacccaat ggcacagaac ccgtttaaag cactaaatat caatattgac aagattgagt
     2401 ctgctctgac gcagaatggc gtcacaaact attcctctaa tgtaaaaaac gaaagagaaa
     2461 ctcacatatc tggcacatat aaaggaatag acttcttaat aaaactaatg ccatcaggcg
     2521 gaaataccac tatcggaaga gcgtctgggc aaaataacac ttactttgat gaaatcgcct
     2581 tgattataaa agaaaactgt ttgtattcag acacaaagaa ctttgaatac accattccaa
     2641 aattcagtga tgatgacagg gcaaatctat ttgaatttct ttctgaagag gggataacaa
     2701 taacagaaga taataataac gatcctaatt gtaaacacca atatattatg accaccagca
     2761 atggtgacag ggtcagggca aaaatttaca agcgcggctc tattcaattc caaggaaaat
     2821 accttcaaat cgcgagtttg attaacgatt tcatgtgctc aatactaaac atgaaagaga
     2881 ttgtcgaaca aaaaaataaa gaatttaatg ttgacataaa aaaagaaact attgagtccg
     2941 agttgcatag caaactacca aaaagcatcg ataaaatcca tgaagatatc aaaaaacagc
     3001 tatcatgctc gctaataatg aaaaaaatag atgtcgaaat ggaagattac tcaacatact
     3061 gcttctctgc attaagagcc atagaaggct ttatatatca aatacttaat gatgtttgca
     3121 atccatcatc atcaaagaac cttggcgaat acttcactga aaacaaaccc aaatatataa
     3181 tcagagaaat acaccaagaa actataaatg gtgaaatagc ggaagttttg tgtgaatgct
     3241 acacttactg gcatgagaac aggcatggtt tgtttcatat gaaaccagga atagctgaca
     3301 cgaaga
//
