LOCUS       NZ_CP038607             2244 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Senftenberg strain
            CFIAFB20170120 plasmid pGTAFD2016-MI-0253.3, complete sequence.
ACCESSION   NZ_CP038607
VERSION     NZ_CP038607.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10501887
            Assembly: GCF_004768625.1
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  JOURNAL   Unpublished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_004768625.1-RS_2024_06_05
            Annotation Date                   :: 06/05/2024 01:19:06
            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)                     :: 5,097
            CDSs (total)                      :: 4,977
            Genes (coding)                    :: 4,795
            CDSs (with protein)               :: 4,795
            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)              :: 182
            CDSs (without protein)            :: 182
            Pseudo Genes (ambiguous residues) :: 0 of 182
            Pseudo Genes (frameshifted)       :: 51 of 182
            Pseudo Genes (incomplete)         :: 144 of 182
            Pseudo Genes (internal stop)      :: 26 of 182
            Pseudo Genes (multiple problems)  :: 32 of 182
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP038607.1.
            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="CFIAFB20170120"
                     /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            40..267
                     /locus_tag="EIP71_RS26060"
                     /old_locus_tag="EIP71_26060"
     CDS             40..267
                     /locus_tag="EIP71_RS26060"
                     /old_locus_tag="EIP71_26060"
                     /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            complement(315..503)
                     /locus_tag="EIP71_RS26065"
                     /old_locus_tag="EIP71_26065"
     CDS             complement(315..503)
                     /locus_tag="EIP71_RS26065"
                     /old_locus_tag="EIP71_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(755..1072)
                     /locus_tag="EIP71_RS26070"
                     /old_locus_tag="EIP71_26070"
     CDS             complement(755..1072)
                     /locus_tag="EIP71_RS26070"
                     /old_locus_tag="EIP71_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          complement(1455..1945)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.929"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 atgaagcgtt cacagctgac gttaatagat gggtgcttca tgtttggttt ttcaccagga
       61 gaacttatga acctttgccc cgatgaacgt ctgctctttg tgcggatgat ttccgctatg
      121 cttcgccgtt cgggcggtga tgcgggtgct gttatgtttg aggcgtatcg ccatattgtg
      181 tccgatacca atcaagctcg tcgttcctac atgctcgacc tgctcgaaag cgtcaggcat
      241 gactatgtac acggtggata tacatagttg ccatggatac gcttttcgtc taagtgagcg
      301 ttcttttcgt ctctttattc gccgtcctgt atgccgaagc gtgcgctcag cttctgataa
      361 agcgcttctg cctgttcgtg cattcgctca cagtcggctg cctcgtcatc aagatcgagc
      421 acgtcgagtt tttcgagcag cagcagcgac tgcgcccgga taaattttgc catgttcagt
      481 gcggctgatt cctgttttgt catacggctt tttcccggtt ttatggtgat cgcagactga
      541 aatcttactt cattcacttg agtgcatagc catgcaggta cgcagaaatc atcaggggcg
      601 ttttttctcg atatgggcac agaaaggtgt atgtttcagg ccggagtcct cagaaacgcc
      661 ctgagggcgc ctgaggtggt gcgggcaacg gatgttatgg taaatccagc tgattggcag
      721 gtataaaaaa agccccgcag ggcttttttg taccttattg aactgcacac tttgcagcct
      781 tcagggcttc cagctgattt agccggttag ctgctttttt gcgggcttcg ccttttgcca
      841 tgccatttcc tatcccaaaa tcacccagga aacctaatac ggtgcgcccg tcaaattcgc
      901 cggttgcctc aatttcttgt tgtacactgc gcgtttttgc gatttccaga gctaccgctt
      961 tgcaatccat tgcggaagat tctggaccgg tgacgttcgc ggcctgtgga tattgctttg
     1021 ttgcgcatcc tgccatgatc agcgctgccg ataggatgaa tatttttttc aaaattatcc
     1081 ttattttatt taggcatagt taagagatac ccattttatc ggcaggaaat gagggttttt
     1141 tagttgaatt ttgggagggg caaggttcca tattggtcga ggattctgga gctgaccggc
     1201 aacggccagc gcggctatgg gccatgcggt ggttgagcat agaaaggatc ttcttgagtt
     1261 cctttttttc tacgcgtaat ctcttgctct gaaaacgaaa aaaccacctg gggaggtggt
     1321 ttttcgaagg ttctctgagc taccaactct ttgaaccgag gtaactggct tggaggagcg
     1381 cagtcaccaa aacttgtcct ttcagtttag ccttaaccgg cgcatgactt caagactaac
     1441 tcctctaaat caattaccag tggctgctgc cagtggtgct tttgcatgtc tttccgggtt
     1501 ggactcaaga cgatagttac cggataaggc gcagcggtcg gactgaacgg ggggttcgtg
     1561 catacagtcc agcttggagc gaactgccta cccggaactg agtgtcaggc gtggaatgag
     1621 acaaacgcgg ccataacagc ggaatgacac cggtaaaccg aaaggcagga acaggagagc
     1681 gcacgaggga gccaccaggg ggaaacgcct ggtatcttta tagtcctgtc gggtttcgcc
     1741 accactgatt tgagcgtcag atttcgtgat gcttgtcagg ggggcggagc ctatggaaaa
     1801 acggcttcgc cgtggccttc ttgcttccct gttaagcttc ttcctggaag atgccaggaa
     1861 atttccgccc cgccagtaag ccggtaccgc tcgccgcagc cgaacggccg agcggagcga
     1921 gtcagtgagc gaggaagcgg aatatctccg tgcttatctt tggcaccgta cgcgctatag
     1981 ctgcattttt taatacgatg caggataggg cagacgccgc aaaatgacgt catccgacat
     2041 cattccgccg cgttcgccca gtgacctaca gtcggctctg gggtgtcggg gcacagcccc
     2101 gacacccgct aaaagcactg acgcgcctgc ggcttgccca accccgcgcc gtccgggaaa
     2161 gaatttcccg atcgacccga cgtttctgtt tacctgtgat gttaacgttt ggatcttttt
     2221 cccgggttta cctattttct tcta
//
