LOCUS       NZ_CP038611             2244 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Senftenberg strain
            CFIAFB20170121 plasmid pGTAFD2016-MI-0253.3, complete sequence.
ACCESSION   NZ_CP038611
VERSION     NZ_CP038611.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10501888
            Assembly: GCF_004768665.1
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  JOURNAL   Unpublished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 (01-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 Name                   :: GCF_004768665.1-RS_2024_06_05
            Annotation Date                   :: 06/05/2024 01:10:50
            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)                     :: 5,096
            CDSs (total)                      :: 4,977
            Genes (coding)                    :: 4,793
            CDSs (with protein)               :: 4,793
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 184
            CDSs (without protein)            :: 184
            Pseudo Genes (ambiguous residues) :: 0 of 184
            Pseudo Genes (frameshifted)       :: 52 of 184
            Pseudo Genes (incomplete)         :: 144 of 184
            Pseudo Genes (internal stop)      :: 27 of 184
            Pseudo Genes (multiple problems)  :: 32 of 184
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP038611.1.
            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="CFIAFB20170121"
                     /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..189
                     /locus_tag="EIO66_RS26050"
                     /old_locus_tag="EIO66_26050"
     CDS             1..189
                     /locus_tag="EIO66_RS26050"
                     /old_locus_tag="EIO66_26050"
                     /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(237..464)
                     /locus_tag="EIO66_RS26055"
                     /old_locus_tag="EIO66_26055"
     CDS             complement(237..464)
                     /locus_tag="EIO66_RS26055"
                     /old_locus_tag="EIO66_26055"
                     /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"
     gene            1676..1993
                     /locus_tag="EIO66_RS26070"
                     /old_locus_tag="EIO66_26070"
     CDS             1676..1993
                     /locus_tag="EIO66_RS26070"
                     /old_locus_tag="EIO66_26070"
                     /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"
     Typing          804..1294
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.929"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 atgacaaaac aggaatcagc cgcactgaac atggcaaaat ttatccgggc gcagtcgctg
       61 ctgctgctcg aaaaactcga cgtgctcgat cttgatgacg aggcagccga ctgtgagcga
      121 atgcacgaac aggcagaagc gctttatcag aagctgagcg cacgcttcgg catacaggac
      181 ggcgaataaa gagacgaaaa gaacgctcac ttagacgaaa agcgtatcca tggcaactat
      241 gtatatccac cgtgtacata gtcatgcctg acgctttcga gcaggtcgag catgtaggaa
      301 cgacgagctt gattggtatc ggacacaata tggcgatacg cctcaaacat aacagcaccc
      361 gcatcaccgc ccgaacggcg aagcatagcg gaaatcatcc gcacaaagag cagacgttca
      421 tcggggcaaa ggttcataag ttctcctggt gaaaaaccaa acatgaagca cccatctatt
      481 aacgtcagct gtgaacgctt cattagaaga aaataggtaa acccgggaaa aagatccaaa
      541 cgttaacatc acaggtaaac agaaacgtcg ggtcgatcgg gaaattcttt cccggacggc
      601 gcggggttgg gcaagccgca ggcgcgtcag tgcttttagc gggtgtcggg gctgtgcccc
      661 gacaccccag agccgactgt aggtcactgg gcgaacgcgg cggaatgatg tcggatgacg
      721 tcattttgcg gcgtctgccc tatcctgcat cgtattaaaa aatgcagcta tagcgcgtac
      781 ggtgccaaag ataagcacgg agatattccg cttcctcgct cactgactcg ctccgctcgg
      841 ccgttcggct gcggcgagcg gtaccggctt actggcgggg cggaaatttc ctggcatctt
      901 ccaggaagaa gcttaacagg gaagcaagaa ggccacggcg aagccgtttt tccataggct
      961 ccgcccccct gacaagcatc acgaaatctg acgctcaaat cagtggtggc gaaacccgac
     1021 aggactataa agataccagg cgtttccccc tggtggctcc ctcgtgcgct ctcctgttcc
     1081 tgcctttcgg tttaccggtg tcattccgct gttatggccg cgtttgtctc attccacgcc
     1141 tgacactcag ttccgggtag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg
     1201 ttcagtccga ccgctgcgcc ttatccggta actatcgtct tgagtccaac ccggaaagac
     1261 atgcaaaagc accactggca gcagccactg gtaattgatt tagaggagtt agtcttgaag
     1321 tcatgcgccg gttaaggcta aactgaaagg acaagttttg gtgactgcgc tcctccaagc
     1381 cagttacctc ggttcaaaga gttggtagct cagagaacct tcgaaaaacc acctccccag
     1441 gtggtttttt cgttttcaga gcaagagatt acgcgtagaa aaaaaggaac tcaagaagat
     1501 cctttctatg ctcaaccacc gcatggccca tagccgcgct ggccgttgcc ggtcagctcc
     1561 agaatcctcg accaatatgg aaccttgccc ctcccaaaat tcaactaaaa aaccctcatt
     1621 tcctgccgat aaaatgggta tctcttaact atgcctaaat aaaataagga taattttgaa
     1681 aaaaatattc atcctatcgg cagcgctgat catggcagga tgcgcaacaa agcaatatcc
     1741 acaggccgcg aacgtcaccg gtccagaatc ttccgcaatg gattgcaaag cggtagctct
     1801 ggaaatcgca aaaacgcgca gtgtacaaca agaaattgag gcaaccggcg aatttgacgg
     1861 gcgcaccgta ttaggtttcc tgggtgattt tgggatagga aatggcatgg caaaaggcga
     1921 agcccgcaaa aaagcagcta accggctaaa tcagctggaa gccctgaagg ctgcaaagtg
     1981 tgcagttcaa taaggtacaa aaaagccctg cggggctttt tttatacctg ccaatcagct
     2041 ggatttacca taacatccgt tgcccgcacc acctcaggcg ccctcagggc gtttctgagg
     2101 actccggcct gaaacataca cctttctgtg cccatatcga gaaaaaacgc ccctgatgat
     2161 ttctgcgtac ctgcatggct atgcactcaa gtgaatgaag taagatttca gtctgcgatc
     2221 accataaaac cgggaaaaag ccgt
//
