LOCUS       CP051831                3306 bp    DNA     circular BCT 08-FEB-2021
DEFINITION  Escherichia coli O157:H7 strain FLT_1998F plasmid pFLT_1998F-2,
            complete sequence.
ACCESSION   CP051831
VERSION     CP051831.1
DBLINK      BioProject: PRJNA627032
            BioSample: SAMN14648852
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  JOURNAL   Unpublished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                   :: 103x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/21/2020 18:46:55
            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)                     :: 5,546
            CDSs (total)                      :: 5,417
            Genes (coding)                    :: 5,209
            CDSs (with protein)               :: 5,209
            Genes (RNA)                       :: 129
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 99
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 208
            CDSs (without protein)            :: 208
            Pseudo Genes (ambiguous residues) :: 0 of 208
            Pseudo Genes (frameshifted)       :: 91 of 208
            Pseudo Genes (incomplete)         :: 90 of 208
            Pseudo Genes (internal stop)      :: 59 of 208
            Pseudo Genes (multiple problems)  :: 25 of 208
            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_1998F"
                     /serotype="O157:H7"
                     /isolation_source="feces"
                     /host="cattle"
                     /db_xref="taxon:83334"
                     /plasmid="pFLT_1998F-2"
                     /geo_loc_name="USA:Nebraska"
                     /lat_lon="40.524829 N 98.140806 W"
                     /collection_date="1998"
                     /collected_by="USMARC"
     gene            join(2968..3306,1..702)
                     /gene="lsoA"
                     /locus_tag="HH260_27225"
     CDS             join(2968..3306,1..702)
                     /gene="lsoA"
                     /locus_tag="HH260_27225"
                     /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="QRI37386.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HQETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     gene            699..1079
                     /gene="lsoB"
                     /locus_tag="HH260_27230"
     CDS             699..1079
                     /gene="lsoB"
                     /locus_tag="HH260_27230"
                     /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="QRI37387.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     gene            complement(1314..1637)
                     /locus_tag="HH260_27235"
     CDS             complement(1314..1637)
                     /locus_tag="HH260_27235"
                     /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="QRI37388.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            1909..2103
                     /locus_tag="HH260_27240"
     CDS             1909..2103
                     /locus_tag="HH260_27240"
                     /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="QRI37389.1"
                     /translation="MNKQQQTALNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2153..2386)
                     /locus_tag="HH260_27245"
                     /pseudo=""
     CDS             complement(2153..2386)
                     /locus_tag="HH260_27245"
                     /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            2291..2662
                     /locus_tag="HH260_27250"
     CDS             2291..2662
                     /locus_tag="HH260_27250"
                     /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="QRI37390.1"
                     /translation="MSKKQSTGRSQHRRRFSIGSAPLTSITKIDAQARGGETRQDYKDT
                     RRFPPEAPSCALLFRPCHLPDTCPPFSLREAWRFLIAHAVGISVRCRSFAPSWAVCTNP
                     PFSPTAAPYPVTIVLSPTR"
                     /name="hypothetical protein"
     Typing          complement(1647..1872)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          2133..2662
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(1318..1637)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="4.0199999999999997e-60"
ORIGIN
        1 gaggggataa caataacaga agataataat aacgatccta attgtaaaca ccaatatatt
       61 atgaccacca gcaatggtga cagggtcagg gcaaaaattt acaagcgcgg ctctattcaa
      121 ttccaaggaa aataccttca aatcgcgagt ttgattaacg atttcatgtg ctcaatacta
      181 aacatgaaag agattgtcga acaaaaaaat aaagaattta atgttgacat aaaaaaagaa
      241 actattgagt ccgagttgca tagcaaacta ccaaaaagca tcgataaaat ccatgaagat
      301 atcaaaaaac agctatcatg ctcgctaata atgaaaaaaa tagatgtcga aatggaagat
      361 tactcaacat actgcttctc tgcattaaga gccatagaag gctttatata tcaaatactt
      421 aatgatgttt gcaatccatc atcatcaaag aaccttggcg aatacttcac tgaaaacaaa
      481 cccaaatata taatcagaga aatacaccaa gaaactataa atggtgaaat agcggaagtt
      541 ttgtgtgaat gctacactta ctggcatgag aacaggcatg gtttgtttca tatgaaacca
      601 ggaatagctg acacgaagac aattaacaaa ttagaatcaa tcgcaatcat cgataccgtt
      661 tgccaattaa tagatggtgg cgtagctagg ttgaaattat gaaaaaagat aaaaaatatc
      721 aaatagaagc aataaaaaat aaagataaaa ctttatttat tgtctatgct actgatattt
      781 atagcccgag cgaatttttc tcaaaaatcg aatccgactt gaagaaaaag aaaagcaagg
      841 gtgatgtttt ttttgattta ataattccta acggtggaaa aaaagatcgt tacgtctata
      901 cgtcatttaa tggcgagaag ttttcaagtt acacattaaa caaagttacg aaaactgatg
      961 aatataatga tttatctgag ctctcggctt cgttctttaa aaaaaacttt gataagatca
     1021 acgtaaacct tctatccaaa gccacatcat ttgctttgaa aaaaggcatt ccaatataat
     1081 atcaagccag aagacattta ccataacgtc tcattacgcg caccgccaaa acgcgctgaa
     1141 cgcgattctg acgcagacac cgcaaaaaga gatgttttcc ccggggtaaa ccggaaaaat
     1201 gcgtcaggat cgctttcagc tcactgcata gctatgcatg aaagtgaatg gcgatcggtt
     1261 tgggggctta cggcgttcat accgtctgtt ttcgacagtt tctctccggg aagctaatct
     1321 gccataagcc tggataacag ggcacggtga tactccgtaa tagcgatcag cacctccgca
     1381 tactctctgt ccccgacacg cttgccgtcg ataaagagtt ttttctgcaa cgcccccagt
     1441 cgcataactt ctttcagcac ccggtcatca gtcagtgagt taactttctt accgagagct
     1501 gccgcccgta aaaaaccaga aacggtcttg ccgcattcag cagccctttt tctgatttcc
     1561 tggtcttctt ctgccgtcag acgaacaggg cgactgatag cccgcctgcg cgtattactt
     1621 ccacttcgtt ttgtcataaa acatggctcc gtatctgaca tggggtgtcg gggcgaagcc
     1681 ctgaccaggg taattgtaat agcgtgcatg tatgcgcggt ataacaattg cacatcctgt
     1741 cctgtctgca agttcgaatt accaacaaag cactgctgtt ttttggcagt gacagtgttg
     1801 tctgactgaa atgtccgtcg gcagaatacc ggcggtaaga cggtcgaaaa gtggtgcgcg
     1861 atataatcac acgacgcaga tgacagacag aacggagaaa acagaaagat gaacaagcag
     1921 cagcaaactg cactcaacat ggcgggattc ataaaaagcc agagcctgac gctgctcgaa
     1981 aaactggacg cactcgatgc tgacgagcag gccaccatgt gtgagaagct gcacgaactc
     2041 gcagaagaac tccagaacag catacagaca cgctttgaag tagaaaatag cacagagata
     2101 taacgctcag ggcaggatgc cgaacggcac aacagagcgt aaggagaaaa tgtcacataa
     2161 ggcgctcttc cgcttcctcg ctcactgact cgctacgctc ggtcgttcga ctgcggcgag
     2221 cggtgtcagc tcactcaaag gcggtaatac ggttatccac agaatcaggg gataaagccg
     2281 gaaagaacat gtgagcaaaa agcaaagcac cggaagaagc cagcaccgca ggcgtttttc
     2341 cataggctcc gcccccctga cgagcatcac aaaaatcgac gctcaagcca gaggtggcga
     2401 aacccgacag gactataaag ataccaggcg tttccccccg gaagctccct cgtgcgctct
     2461 cctgttccga ccctgccact taccggatac ctgtccgcct ttctcccttc gggaagcgtg
     2521 gcgctttctc atagctcacg ctgttggtat ctcagttcgg tgtaggtcgt tcgctccaag
     2581 ctgggctgtg tgcacgaacc ccccgttcag cccgaccgct gcgccttatc cggtaactat
     2641 cgtcttgagt ccaacccggt aagacacgac ttatcgccac tggcagcagc cattggtaac
     2701 tgatttagag gagtttgtct tgaagttatg cacctgttaa ggctaaactg aaagaacaga
     2761 ttttggtgac tgcgctcctc caagccagtt accttggttc aaagagttgg tagctcagcg
     2821 aaccttgaga aaaccaccgt tggtagcggt ggtttttctt tatttatgag atgatgaatc
     2881 aatcggtcta tcaagtcaac gaacagctat tccgttgaca aaaaaacaag atctgtacat
     2941 attcaaaaaa aacaacggat tgacccaatg gcacagaacc cgtttaaagc actaaatatc
     3001 aatattgaca agattgagtc tgctctgacg cagaatggcg tcacaaacta ttcctctaat
     3061 gtaaaaaacg aaagagaaac tcacatatct ggcacatata aaggaataga cttcttaata
     3121 aaactaatgc catcaggcgg aaataccact atcggaagag cgtctgggca aaataacact
     3181 tactttgatg aaatcgcctt gattataaaa gaaaactgtt tgtattcaga cacaaagaac
     3241 tttgaataca ccattccaaa attcagtgat gatgacaggg caaatctatt tgaatttctt
     3301 tctgaa
//
