LOCUS       CP051834                3306 bp    DNA     circular BCT 08-FEB-2021
DEFINITION  Escherichia coli O157:H7 strain FLT_1997A plasmid pFLT_1997A-3,
            complete sequence.
ACCESSION   CP051834
VERSION     CP051834.1
DBLINK      BioProject: PRJNA627032
            BioSample: SAMN14648851
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  JOURNAL   Unpublished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                   :: 114x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/21/2020 18:46:44
            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)                     :: 5,563
            CDSs (total)                      :: 5,431
            Genes (coding)                    :: 5,217
            CDSs (with protein)               :: 5,217
            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)              :: 214
            CDSs (without protein)            :: 214
            Pseudo Genes (ambiguous residues) :: 0 of 214
            Pseudo Genes (frameshifted)       :: 94 of 214
            Pseudo Genes (incomplete)         :: 90 of 214
            Pseudo Genes (internal stop)      :: 60 of 214
            Pseudo Genes (multiple problems)  :: 23 of 214
            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_1997A"
                     /serotype="O157:H7"
                     /isolation_source="feces"
                     /host="cattle"
                     /db_xref="taxon:83334"
                     /plasmid="pFLT_1997A-3"
                     /geo_loc_name="USA:Nebraska"
                     /lat_lon="40.524829 N 98.140806 W"
                     /collection_date="1997"
                     /collected_by="USMARC"
     gene            join(2972..3306,1..46)
                     /gene="lsoB"
                     /locus_tag="HH261_27285"
     CDS             join(2972..3306,1..46)
                     /gene="lsoB"
                     /locus_tag="HH261_27285"
                     /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="QRI42602.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     gene            complement(281..604)
                     /locus_tag="HH261_27290"
     CDS             complement(281..604)
                     /locus_tag="HH261_27290"
                     /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="QRI42598.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            876..1070
                     /locus_tag="HH261_27295"
     CDS             876..1070
                     /locus_tag="HH261_27295"
                     /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="QRI42599.1"
                     /translation="MNKQQQTALNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1120..1353)
                     /locus_tag="HH261_27300"
                     /pseudo=""
     CDS             complement(1120..1353)
                     /locus_tag="HH261_27300"
                     /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            1258..1629
                     /locus_tag="HH261_27305"
     CDS             1258..1629
                     /locus_tag="HH261_27305"
                     /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="QRI42600.1"
                     /translation="MSKKQSTGRSQHRRRFSIGSAPLTSITKIDAQARGGETRQDYKDT
                     RRFPPEAPSCALLFRPCHLPDTCPPFSLREAWRFLIAHAVGISVRCRSFAPSWAVCTNP
                     PFSPTAAPYPVTIVLSPTR"
                     /name="hypothetical protein"
     gene            1935..2975
                     /gene="lsoA"
                     /locus_tag="HH261_27310"
     CDS             1935..2975
                     /gene="lsoA"
                     /locus_tag="HH261_27310"
                     /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="QRI42601.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HQETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     Typing          complement(614..839)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          1100..1629
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(285..604)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="4.0199999999999997e-60"
ORIGIN
        1 atccaaagcc acatcatttg ctttgaaaaa aggcattcca atataatatc aagccagaag
       61 acatttacca taacgtctca ttacgcgcac cgccaaaacg cgctgaacgc gattctgacg
      121 cagacaccgc aaaaagagat gttttccccg gggtaaaccg gaaaaatgcg tcaggatcgc
      181 tttcagctca ctgcatagct atgcatgaaa gtgaatggcg atcggtttgg gggcttacgg
      241 cgttcatacc gtctgttttc gacagtttct ctccgggaag ctaatctgcc ataagcctgg
      301 ataacagggc acggtgatac tccgtaatag cgatcagcac ctccgcatac tctctgtccc
      361 cgacacgctt gccgtcgata aagagttttt tctgcaacgc ccccagtcgc ataacttctt
      421 tcagcacccg gtcatcagtc agtgagttaa ctttcttacc gagagctgcc gcccgtaaaa
      481 aaccagaaac ggtcttgccg cattcagcag ccctttttct gatttcctgg tcttcttctg
      541 ccgtcagacg aacagggcga ctgatagccc gcctgcgcgt attacttcca cttcgttttg
      601 tcataaaaca tggctccgta tctgacatgg ggtgtcgggg cgaagccctg accagggtaa
      661 ttgtaatagc gtgcatgtat gcgcggtata acaattgcac atcctgtcct gtctgcaagt
      721 tcgaattacc aacaaagcac tgctgttttt tggcagtgac agtgttgtct gactgaaatg
      781 tccgtcggca gaataccggc ggtaagacgg tcgaaaagtg gtgcgcgata taatcacacg
      841 acgcagatga cagacagaac ggagaaaaca gaaagatgaa caagcagcag caaactgcac
      901 tcaacatggc gggattcata aaaagccaga gcctgacgct gctcgaaaaa ctggacgcac
      961 tcgatgctga cgagcaggcc accatgtgtg agaagctgca cgaactcgca gaagaactcc
     1021 agaacagcat acagacacgc tttgaagtag aaaatagcac agagatataa cgctcagggc
     1081 aggatgccga acggcacaac agagcgtaag gagaaaatgt cacataaggc gctcttccgc
     1141 ttcctcgctc actgactcgc tacgctcggt cgttcgactg cggcgagcgg tgtcagctca
     1201 ctcaaaggcg gtaatacggt tatccacaga atcaggggat aaagccggaa agaacatgtg
     1261 agcaaaaagc aaagcaccgg aagaagccag caccgcaggc gtttttccat aggctccgcc
     1321 cccctgacga gcatcacaaa aatcgacgct caagccagag gtggcgaaac ccgacaggac
     1381 tataaagata ccaggcgttt ccccccggaa gctccctcgt gcgctctcct gttccgaccc
     1441 tgccacttac cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata
     1501 gctcacgctg ttggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc
     1561 acgaaccccc cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca
     1621 acccggtaag acacgactta tcgccactgg cagcagccat tggtaactga tttagaggag
     1681 tttgtcttga agttatgcac ctgttaaggc taaactgaaa gaacagattt tggtgactgc
     1741 gctcctccaa gccagttacc ttggttcaaa gagttggtag ctcagcgaac cttgagaaaa
     1801 ccaccgttgg tagcggtggt ttttctttat ttatgagatg atgaatcaat cggtctatca
     1861 agtcaacgaa cagctattcc gttgacaaaa aaacaagatc tgtacatatt caaaaaaaac
     1921 aacggattga cccaatggca cagaacccgt ttaaagcact aaatatcaat attgacaaga
     1981 ttgagtctgc tctgacgcag aatggcgtca caaactattc ctctaatgta aaaaacgaaa
     2041 gagaaactca catatctggc acatataaag gaatagactt cttaataaaa ctaatgccat
     2101 caggcggaaa taccactatc ggaagagcgt ctgggcaaaa taacacttac tttgatgaaa
     2161 tcgccttgat tataaaagaa aactgtttgt attcagacac aaagaacttt gaatacacca
     2221 ttccaaaatt cagtgatgat gacagggcaa atctatttga atttctttct gaagagggga
     2281 taacaataac agaagataat aataacgatc ctaattgtaa acaccaatat attatgacca
     2341 ccagcaatgg tgacagggtc agggcaaaaa tttacaagcg cggctctatt caattccaag
     2401 gaaaatacct tcaaatcgcg agtttgatta acgatttcat gtgctcaata ctaaacatga
     2461 aagagattgt cgaacaaaaa aataaagaat ttaatgttga cataaaaaaa gaaactattg
     2521 agtccgagtt gcatagcaaa ctaccaaaaa gcatcgataa aatccatgaa gatatcaaaa
     2581 aacagctatc atgctcgcta ataatgaaaa aaatagatgt cgaaatggaa gattactcaa
     2641 catactgctt ctctgcatta agagccatag aaggctttat atatcaaata cttaatgatg
     2701 tttgcaatcc atcatcatca aagaaccttg gcgaatactt cactgaaaac aaacccaaat
     2761 atataatcag agaaatacac caagaaacta taaatggtga aatagcggaa gttttgtgtg
     2821 aatgctacac ttactggcat gagaacaggc atggtttgtt tcatatgaaa ccaggaatag
     2881 ctgacacgaa gacaattaac aaattagaat caatcgcaat catcgatacc gtttgccaat
     2941 taatagatgg tggcgtagct aggttgaaat tatgaaaaaa gataaaaaat atcaaataga
     3001 agcaataaaa aataaagata aaactttatt tattgtctat gctactgata tttatagccc
     3061 gagcgaattt ttctcaaaaa tcgaatccga cttgaagaaa aagaaaagca agggtgatgt
     3121 tttttttgat ttaataattc ctaacggtgg aaaaaaagat cgttacgtct atacgtcatt
     3181 taatggcgag aagttttcaa gttacacatt aaacaaagtt acgaaaactg atgaatataa
     3241 tgatttatct gagctctcgg cttcgttctt taaaaaaaac tttgataaga tcaacgtaaa
     3301 ccttct
//
