LOCUS       NZ_CP028604             2678 bp    DNA     circular CON 19-JUN-2024
DEFINITION  Escherichia coli strain 144 plasmid pTA144-3, complete sequence.
ACCESSION   NZ_CP028604
VERSION     NZ_CP028604.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08773051
            Assembly: GCF_005221585.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2678)
  AUTHORS   Bono,J.L. and Arthur,T.M.
  TITLE     WGA of Escherichia coli O157:H7: comparison of multiple isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2678)
  AUTHORS   Bono,J.L. and Arthur,T.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-APR-2018) 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 Date                     :: 11-DEC-2017
            Assembly Method                   :: HGAP v. RS_HGAP_Assembly.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 210x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_005221585.1-RS_2024_06_19
            Annotation Date                   :: 06/19/2024 09:52:43
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,669
            CDSs (total)                      :: 5,539
            Genes (coding)                    :: 5,220
            CDSs (with protein)               :: 5,220
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 100
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 319
            CDSs (without protein)            :: 319
            Pseudo Genes (ambiguous residues) :: 0 of 319
            Pseudo Genes (frameshifted)       :: 118 of 319
            Pseudo Genes (incomplete)         :: 180 of 319
            Pseudo Genes (internal stop)      :: 76 of 319
            Pseudo Genes (multiple problems)  :: 45 of 319
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP028604.1.
            Bacteria available from Dr. Terry Arthur lab at the U.S Meat Animal
            Research Center.
            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..2678
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="144"
                     /serotype="O157:H7"
                     /isolation_source="cattle"
                     /db_xref="taxon:562"
                     /plasmid="pTA144-3"
                     /collection_date="2011"
                     /collected_by="USMARC"
     gene            451..612
                     /locus_tag="C9E68_RS29890"
     CDS             451..612
                     /locus_tag="C9E68_RS29890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071527578.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHDLSPLAAATGNRIRGVSLE
                     VMRLLRLN"
                     /name="replication initiation protein"
     gene            complement(826..1230)
                     /locus_tag="C9E68_RS28015"
                     /old_locus_tag="C9E68_29350"
     CDS             complement(826..1230)
                     /locus_tag="C9E68_RS28015"
                     /old_locus_tag="C9E68_29350"
                     /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(1227..1499)
                     /locus_tag="C9E68_RS28020"
                     /old_locus_tag="C9E68_29355"
     CDS             complement(1227..1499)
                     /locus_tag="C9E68_RS28020"
                     /old_locus_tag="C9E68_29355"
                     /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(1858..2181)
                     /gene="mobA"
                     /locus_tag="C9E68_RS28025"
                     /old_locus_tag="C9E68_29360"
     CDS             complement(1858..2181)
                     /gene="mobA"
                     /locus_tag="C9E68_RS28025"
                     /old_locus_tag="C9E68_29360"
                     /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            2465..2659
                     /locus_tag="C9E68_RS28030"
                     /old_locus_tag="C9E68_29365"
     CDS             2465..2659
                     /locus_tag="C9E68_RS28030"
                     /old_locus_tag="C9E68_29365"
                     /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(2191..2427)
                     /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(1862..2181)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.196"
                     /coverage="100.0"
                     /evalue="1.5799999999999998e-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 cccccccttg gcacgccgta acctcgctaa acgttcagca tccagttaat ccatactacc
      841 ttgctcgtaa cgtttctcta tcaatctcat ttgttgcaca atatccttcg cagaagttct
      901 attaatcttt ttattctttc taccaaaaaa catagaaagc actccacaaa taaggcttgc
      961 ccaaaatacg taccatgaaa ttaatatctg ccttggcata taaccatcat ctgatggcaa
     1021 atctaaagtt aatgctgcta tcaatgccga gccagccaca cctaaaaata tagaaccaat
     1081 cgtatggtat atattttcat catcactaat actttctatt ttccctatta aaaaatccca
     1141 ttcttcaaca agaatagggt aagccatttt cttttttggt tgagcaattt catagtcctg
     1201 agacatttta aaattattac caccactcac tttgagcctc catcttgctt attgtcagca
     1261 gataagcacc ctgagataat ggcattaaca agaacaacat tcccgcaatt atcacaagtt
     1321 acaggaataa ttgggactat cggacctgcc ccaataacaa cattaccttc atgaaattct
     1381 cttagttcaa aaattttgtc agaaacattc caacgccctt ttttacacaa gggacatttg
     1441 ctccctcccc acttttcaga caaatattta attatttgat ctgacttaac atcactcata
     1501 ttccctccaa gcattcctta tactcatata tttattagcg aacaatcaca tcactcaata
     1561 atttattgat caagtaactt tatagagtac atccatatct gttttgtgcg caaaaaaaca
     1621 taaatataaa atcttacatt taccataata ccagtattgt acgcaccgct gaaacgcgct
     1681 gaacgcgatt ctgacgcaga caccgcaaaa agagatgttt taccccggga aaacaggaag
     1741 gatgcgtcag gatcgttttc agctcgctgc atagctatgc atgaaagcga atggtgatca
     1801 ctttgggagc ttacggtgtt cataccgtct gttttcgaca gttttctctc cgggaagcta
     1861 atctgccata agtctggata acagggcacg gtgatactcc gtaatagcga tcagcacctc
     1921 cgcatactcc ctgttcccga cacgcttgcc gtcgataaag agttttttct gtaacgcccc
     1981 cagtctcata acttctttca gtacccgatc atcagtcagt gagttaactt tcttaccgag
     2041 agctgccgcc cgtaaaaaac cggaaacggt cttgccgcat tcagcagccc tttttctgat
     2101 ttcctggtct tcttctaccg tcaggcgaac agggcgactg atagcccgcc tgcgcgtatt
     2161 acttccactt cgttttgtca taaaacatgg ctccgtatct gacatgggtg tcggggcaaa
     2221 gccctgacca gggcaattgt aatagcgtgc atgtatgcgc ggtataacaa ttgcacatcc
     2281 tgtcctgtca gcaagctcga attaccgaca aaggcacggc agttttttgg cagtgacagt
     2341 gttgtctgac agaaatgccc gtcaaaaagc caagcggcag aatagcggca gcaaaacagt
     2401 cgaaaagtgg tacgcgatat aatcacacaa cgcagatgac agacagaacg gagaaaacga
     2461 aaagatgaac aagcagcagc aagccgtact caacatggcg ggattcataa aaagtcagag
     2521 cctgacgctg ctcgaaaaac tggacgcact caatgccgac gaacaggccg ccatgtgtga
     2581 gaaactgcac gaactcgcag aagaactcca gaacagcata cagacacgct ttgaagcgga
     2641 aaatcttacc gggatataac gctccagaca ggatgcag
//
