LOCUS       NZ_CP039282             2244 bp    DNA     circular CON 29-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Senftenberg strain
            CFIAFB20170119 plasmid pGTAFD2016-MI-0253.3, complete sequence.
ACCESSION   NZ_CP039282
VERSION     NZ_CP039282.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10501886
            Assembly: GCF_004798765.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Senftenberg
  ORGANISM  Salmonella enterica subsp. enterica serovar Senftenberg
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2244)
  AUTHORS   Robertson,J., Lin,J., Wren-Hedegus,A., Arya,G., Carrillo,C. and
            Nash,J.H.E.
  TITLE     Development of a multi-locus typing scheme for an Enterobacteriaceae
            linear plasmid that mediates inter-species transfer of flagella
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2244)
  AUTHORS   Robertson,J., Lin,J., Wren-Hedegus,A., Arya,G., Carrillo,C. and
            Nash,J.H.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-APR-2019) Public Health Agency of Canada, National
            Microbiology Laboratory at Guelph, 110 Stone Road West, Guelph,
            Ontario N1G3W4, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 4.5
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 60.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/29/2023 04:03:44
            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)                     :: 5,075
            CDSs (total)                      :: 4,955
            Genes (coding)                    :: 4,774
            CDSs (with protein)               :: 4,774
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 181
            CDSs (without protein)            :: 181
            Pseudo Genes (ambiguous residues) :: 0 of 181
            Pseudo Genes (frameshifted)       :: 53 of 181
            Pseudo Genes (incomplete)         :: 140 of 181
            Pseudo Genes (internal stop)      :: 28 of 181
            Pseudo Genes (multiple problems)  :: 34 of 181
            Pseudo Genes (short protein)      :: 1 of 181
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP039282.1.
            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..2244
                     /organism="Salmonella enterica subsp. enterica serovar
                     Senftenberg"
                     /mol_type="genomic DNA"
                     /strain="CFIAFB20170119"
                     /serovar="Senftenberg"
                     /isolation_source="food"
                     /sub_species="enterica"
                     /db_xref="taxon:28150"
                     /plasmid="pGTAFD2016-MI-0253.3"
                     /geo_loc_name="Canada"
                     /collection_date="2017"
                     /collected_by="CFIA"
     gene            1..318
                     /locus_tag="EIP70_RS26040"
                     /old_locus_tag="EIP70_26060"
     CDS             1..318
                     /locus_tag="EIP70_RS26040"
                     /old_locus_tag="EIP70_26060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000718045.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000718044.1"
                     /translation="MKKIFILSAALIMAGCATKQYPQAANVTGPESSAMDCKAVALEIA
                     KTRSVQQEIEATGEFDGRTVLGFLGDFGIGNGMAKGEARKKAANRLNQLEALKAAKCAV
                     Q"
                     /name="hypothetical protein"
     gene            570..758
                     /locus_tag="EIP70_RS25760"
                     /old_locus_tag="EIP70_26065"
     CDS             570..758
                     /locus_tag="EIP70_RS25760"
                     /old_locus_tag="EIP70_26065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /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_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(806..1033)
                     /locus_tag="EIP70_RS25765"
                     /old_locus_tag="EIP70_26070"
     CDS             complement(806..1033)
                     /locus_tag="EIP70_RS25765"
                     /old_locus_tag="EIP70_26070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_224019247.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     Typing          1373..1863
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.929"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 ttgaaaaaaa tattcatcct atcggcagcg ctgatcatgg caggatgcgc aacaaagcaa
       61 tatccacagg ccgcgaacgt caccggtcca gaatcttccg caatggattg caaagcggta
      121 gctctggaaa tcgcaaaaac gcgcagtgta caacaagaaa ttgaggcaac cggcgaattt
      181 gacgggcgca ccgtattagg tttcctgggt gattttggga taggaaatgg catggcaaaa
      241 ggcgaagccc gcaaaaaagc agctaaccgg ctaaatcagc tggaagccct gaaggctgca
      301 aagtgtgcag ttcaataagg tacaaaaaag ccctgcgggg ctttttttat acctgccaat
      361 cagctggatt taccataaca tccgttgccc gcaccacctc aggcgccctc agggcgtttc
      421 tgaggactcc ggcctgaaac atacaccttt ctgtgcccat atcgagaaaa aacgcccctg
      481 atgatttctg cgtacctgca tggctatgca ctcaagtgaa tgaagtaaga tttcagtctg
      541 cgatcaccat aaaaccggga aaaagccgta tgacaaaaca ggaatcagcc gcactgaaca
      601 tggcaaaatt tatccgggcg cagtcgctgc tgctgctcga aaaactcgac gtgctcgatc
      661 ttgatgacga ggcagccgac tgtgagcgaa tgcacgaaca ggcagaagcg ctttatcaga
      721 agctgagcgc acgcttcggc atacaggacg gcgaataaag agacgaaaag aacgctcact
      781 tagacgaaaa gcgtatccat ggcaactatg tatatccacc gtgtacatag tcatgcctga
      841 cgctttcgag caggtcgagc atgtaggaac gacgagcttg attggtatcg gacacaatat
      901 ggcgatacgc ctcaaacata acagcacccg catcaccgcc cgaacggcga agcatagcgg
      961 aaatcatccg cacaaagagc agacgttcat cggggcaaag gttcataagt tctcctggtg
     1021 aaaaaccaaa catgaagcac ccatctatta acgtcagctg tgaacgcttc attagaagaa
     1081 aataggtaaa cccgggaaaa agatccaaac gttaacatca caggtaaaca gaaacgtcgg
     1141 gtcgatcggg aaattctttc ccggacggcg cggggttggg caagccgcag gcgcgtcagt
     1201 gcttttagcg ggtgtcgggg ctgtgccccg acaccccaga gccgactgta ggtcactggg
     1261 cgaacgcggc ggaatgatgt cggatgacgt cattttgcgg cgtctgccct atcctgcatc
     1321 gtattaaaaa atgcagctat agcgcgtacg gtgccaaaga taagcacgga gatattccgc
     1381 ttcctcgctc actgactcgc tccgctcggc cgttcggctg cggcgagcgg taccggctta
     1441 ctggcggggc ggaaatttcc tggcatcttc caggaagaag cttaacaggg aagcaagaag
     1501 gccacggcga agccgttttt ccataggctc cgcccccctg acaagcatca cgaaatctga
     1561 cgctcaaatc agtggtggcg aaacccgaca ggactataaa gataccaggc gtttccccct
     1621 ggtggctccc tcgtgcgctc tcctgttcct gcctttcggt ttaccggtgt cattccgctg
     1681 ttatggccgc gtttgtctca ttccacgcct gacactcagt tccgggtagg cagttcgctc
     1741 caagctggac tgtatgcacg aaccccccgt tcagtccgac cgctgcgcct tatccggtaa
     1801 ctatcgtctt gagtccaacc cggaaagaca tgcaaaagca ccactggcag cagccactgg
     1861 taattgattt agaggagtta gtcttgaagt catgcgccgg ttaaggctaa actgaaagga
     1921 caagttttgg tgactgcgct cctccaagcc agttacctcg gttcaaagag ttggtagctc
     1981 agagaacctt cgaaaaacca cctccccagg tggttttttc gttttcagag caagagatta
     2041 cgcgtagaaa aaaaggaact caagaagatc ctttctatgc tcaaccaccg catggcccat
     2101 agccgcgctg gccgttgccg gtcagctcca gaatcctcga ccaatatgga accttgcccc
     2161 tcccaaaatt caactaaaaa accctcattt cctgccgata aaatgggtat ctcttaacta
     2221 tgcctaaata aaataaggat aatt
//
