LOCUS       NZ_CP038610             4018 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Senftenberg strain
            CFIAFB20170121 plasmid pGTAFD2016-MI-0253.2, complete sequence.
ACCESSION   NZ_CP038610
VERSION     NZ_CP038610.1
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 4018)
  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  JOURNAL   Unpublished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 4018)
  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
            CP038610.1.
            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..4018
                     /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-0253.2"
                     /geo_loc_name="Canada"
                     /collection_date="2017"
                     /collected_by="CFIA"
     gene            80..565
                     /locus_tag="EIO66_RS26225"
     CDS             80..565
                     /locus_tag="EIO66_RS26225"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_061390563.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMISQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIQEQKSTQAMLSEKNNGVQLTTCGEERRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            569..784
                     /locus_tag="EIO66_RS26230"
     CDS             569..784
                     /locus_tag="EIO66_RS26230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_072048928.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            913..1440
                     /locus_tag="EIO66_RS26025"
                     /old_locus_tag="EIO66_26025"
     CDS             913..1440
                     /locus_tag="EIO66_RS26025"
                     /old_locus_tag="EIO66_26025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004883515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016246513.1"
                     /translation="MKCFWACSVSVVLAMSFTVAAAENNDNVTYTKPSAGRDLYLTCKG
                     YQVKGASVINVEKPSYLEGTGEQVEFAIITPVGASDGLKVFFDSWGFSSFGLIESHVMH
                     EHWSLVHVGGRASVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCMNSDKRPSWVEKIY
                     TRTGVFRGGIED"
                     /name="hypothetical protein"
     gene            1695..1907
                     /locus_tag="EIO66_RS26030"
                     /old_locus_tag="EIO66_26030"
     CDS             1695..1907
                     /locus_tag="EIO66_RS26030"
                     /old_locus_tag="EIO66_26030"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_034169353.1"
                     /translation="MGDFERTFGAGADFDRIIDENNSEYFREDRRKTKNSKKKFSSFQD
                     ALVWAKANPGKTIIRSPDGVGFIEK"
                     /name="hypothetical protein"
     gene            3097..3420
                     /locus_tag="EIO66_RS26045"
                     /old_locus_tag="EIO66_26045"
     CDS             3097..3420
                     /locus_tag="EIO66_RS26045"
                     /old_locus_tag="EIO66_26045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_024191642.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQICLDEKPSRAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGTGHDRVQVVAVLMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          2807..2984
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.222"
                     /coverage="83.0"
                     /evalue="4.5e-50"
     Typing          complement(2337..2857)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.924"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3390..4018
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.714"
                     /coverage="94.0"
                     /evalue="1.06e-133"
ORIGIN
        1 gtggtgcgca ccacgaaaag cagcatcagc attgccgacc ctgacggggg gcgaaacatc
       61 cgactgaagg gagccatcta tgaacagtct tttaacgctg gcgaaggact tagagcagaa
      121 atcgaaagcg cagcagcaga ctaccggcga gatgctgaaa gccgcattca gcgagcacga
      181 gaagtctgtc agagcggaac tgagcgaaag cgagaagaga atcagcgccg ccatcctcga
      241 ccacgaccgg aagctgtcct cagccatgag ccaacgcacg aaagggatgc tgcgtatgat
      301 cagccagacg tggctgacca tagtcctggt ctccgcgcta ctgatcgcct cgagcgcggg
      361 cattctgtgg tggcaggggc aacagatact cgacaactac acgaccatcc aggaacagaa
      421 gagcacgcag gccatgcttt cagagaagaa caacggcgtc cagctcacga cctgcgggga
      481 ggagagacgc cgctgcgtga gggtgaaccc ggaagcggga agattcggag aggattcgag
      541 ctggatgata ctggcgggga aatagcacat gacggaactg gaaaaacagt tgctgagcgc
      601 attagagcag ctacagcagg actactcgaa aaggctggac gagtgggaga acgccttcgc
      661 ggaatggcgg acgatgtctg ggcttatgca acgggagaac gcggcgctga gcgagcgcgt
      721 cacgggcttg agcaggcagg tgcagagttt gagcgatcag ctgcgccgat tgtcgcaagg
      781 ctgaatggca tcgaggcgca ccgggagcag gagcgcgcgg cgcagcacca gaaagcgctg
      841 gagctggaac gatcgcagcg gcagaaaggt tttgagcttg gaatgtagtt aatcaatgaa
      901 aagggatgcg ttatgaaatg tttctgggct tgctcagtct cggtggtttt ggctatgtca
      961 tttacagtcg ctgctgcgga gaataacgac aacgttacat atacaaaacc gtcagccggg
     1021 agggacttat atcttacctg taaaggttat caggtgaagg gggcatctgt aattaacgtc
     1081 gagaaacctt cttaccttga aggtactggt gagcaggttg aatttgcaat cattactcct
     1141 gttggtgcgt ctgacggact caaggtcttt tttgattcat ggggtttttc ttcatttgga
     1201 ttgattgaaa gccatgtgat gcatgagcac tggtctttag ttcatgttgg ggggcgtgct
     1261 tcagtcaaag gtgaaaagat tgattattca tttgtagata accagccaca ggaggggggg
     1321 agctataaac ccaaaacagg tgtgttcctg tacggctgca tgaactcgga taaaagacca
     1381 tcttgggtcg aaaagatcta cacaagaaca ggtgtgtttc gagggggcat agaagactaa
     1441 aatactgctt acagcatgaa aatccattga acagagtgtc agttcatttc cgtgcataac
     1501 tatgcatacc gtaagaactt acggggggca tttatcggcg tttttacgtg gtaagaggtg
     1561 ctcttttgcg gttcatggcg cagaacggtg ctgaggctgt ctgcggcggt gcgaacaagg
     1621 gatgttatgg taaataagag tgtcttttgg atattttaaa tctgtttttt tattaaattt
     1681 aatgggggca gaaaatgggg gattttgagc gtacctttgg agctggtgct gattttgatc
     1741 ggataattga tgagaataac agcgaatatt ttcgagaaga tcgccgaaaa actaaaaatt
     1801 caaaaaaaaa attctcttct tttcaagatg ctttggtttg ggcgaaagct aatcctggca
     1861 aaacgataat aagatctcca gacggtgtgg ggtttattga aaaatgaaag agtggattca
     1921 ctgtaaaaca acagtcattt tttggacaac actgtctata tacgtactca tatgtttcac
     1981 agtgtcgtat gttggagtct atgttacgta cgttgcaggg cctattttgt tagttacagg
     2041 cattcttgca tggcttacga aacctagctg taatccaaag tgactgggct agacgaactt
     2101 tatcccccca taaaacccgc ttttttaaac ggatcttctt gagatcattc atggagaatc
     2161 gtaatctctt agcactgtaa acgaaaaaac cgcccagcaa ggcggttttt tcgaaggttc
     2221 tcagagcagc aactctttga accgaggtaa ctggcttgga ggagcgcagt caccaaaact
     2281 tgtcctttca gtttagcctt aaccggcgca tgacttcaag actaactcct ctaaatcaat
     2341 taccagtggc tgctgccagt ggtgcttttg catgtctttc cgggttggac tcaagacgat
     2401 agttaccgga taaggcgcag cggtcggact gaacgggggg ttcgtgcata cagtccagct
     2461 tggagcgaac tgcctacccg gaactgagtg tcaggcgtgg aattagataa acgcggccat
     2521 aacagcggaa tgacaccggt aaaccgaaag gcaggaacag gagagcgcac gagggagcta
     2581 ccagggggaa acgcctggga tctttatagt cctgtcgggt ttcgccacca ctgatttgag
     2641 cgtcagattt cgtgatgctt gtcagggggg cggagcctat ggaaaaacgg caacgccgca
     2701 tcctttttcc gccctttctg attgatttcc gcttagtctc tttatccagc cattcgtaag
     2761 ctggcaacgc ccgccgcagt ctcacggcag gagcgcagcg accgagtgag cgaggaggcg
     2821 tcatttcacc gggatctgca tttcgcactt acgccccaca gcagcatttt ctccctgcca
     2881 catgaagcac tttcctgaat ccccactccg atttaccatg ttaagccagt atacactccg
     2941 ctagcgctac gtgactggtt cagggctgcg ccccgaaacc cgctgaaaag tactgccgcg
     3001 ccctgcgggc ttgcccaaca ccgctccgga caggaaaaaa tttcccgccc gaaccggtgt
     3061 tatccggagg atggtttggc agaaaagcgc aacaaaatgc tcactatgtg ggtgacagaa
     3121 gacgagcacc gccgacttct ggagcgctgt gagggtaaac aactcgcggc ctggatgcgc
     3181 cagatatgcc tggacgaaaa gccctcgcgt gctggcaaac ttccatccat ctcgccggcg
     3241 ctgcttcgtc agcttgccgg catgggtaac aacctcaacc agattgcccg gcaggttaac
     3301 gccggtggtg gtactgggca cgatcgcgtg caggttgtcg ccgtgctgat ggccattgat
     3361 gccggactcg agcggctgcg gcacgccgtg ctggaaaagg gggcagacga tgatcgttaa
     3421 gtttcatccc agaggccgcg gcggtggcgg cggtccggtg gattatctgc tggggaaaga
     3481 ccggcagcgc gacggcgcca gcgttctgca gggtaagccg gaggaagtgc gggagcttat
     3541 tgacgcctcg ccttacgcca agaaatacac ctccggcgtg ctgtcttttg ccgaacagga
     3601 tttgccgccc ggccagcgtg aaaagctgat ggcgagcttt gagcgggttc tgatgcccgg
     3661 actcgataaa gaccagtaca gcgtactgtg ggttgagcac cgggacaaag ggcggctgga
     3721 gctgaacttc ctgatcccga acacggagct gctgaccggc agacgtctcc agccgtatta
     3781 cgaccgcgcc gaccgtccgc gcattgatgc ctggcagacc atagtgaacg gcagactggg
     3841 gctgcacgac ccgaacgcgc cggaaaaccg gcgggcgctg gttacaccgt ccgcgctgcc
     3901 ggaagcgaag caggaagccg cccaggcgat tacgcgcggc ctactttccc ttgcctcatc
     3961 cggggagctg aaaacccgtc aggacgtcac tgaggcgctg gaaagtgcgg gttttgag
//
