LOCUS       NZ_CP029994             3904 bp    DNA     circular CON 14-JUL-2023
DEFINITION  Salmonella enterica subsp. salamae serovar 56:z10:e,n,x strain
            SA20011914 plasmid pSA20011914.2, complete sequence.
ACCESSION   NZ_CP029994
VERSION     NZ_CP029994.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09237642
            Assembly: GCF_003324795.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. salamae serovar 56:z10:e,n,x
  ORGANISM  Salmonella enterica subsp. salamae serovar 56:z10:e,n,x
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3904)
  AUTHORS   Nash,J.H.E., Robertson,J. and Bessonov,K.
  TITLE     Salmonella Enterica genomes from various sources
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3904)
  AUTHORS   Nash,J.H.E., Robertson,J. and Bessonov,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JUN-2018) 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. 0.4.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 117x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/14/2023 03:31:33
            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)                     :: 4,581
            CDSs (total)                      :: 4,464
            Genes (coding)                    :: 4,278
            CDSs (with protein)               :: 4,278
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 186
            CDSs (without protein)            :: 186
            Pseudo Genes (ambiguous residues) :: 0 of 186
            Pseudo Genes (frameshifted)       :: 107 of 186
            Pseudo Genes (incomplete)         :: 92 of 186
            Pseudo Genes (internal stop)      :: 35 of 186
            Pseudo Genes (multiple problems)  :: 41 of 186
            Pseudo Genes (short protein)      :: 1 of 186
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP029994.1.
            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..3904
                     /organism="Salmonella enterica subsp. salamae serovar
                     56:z10:e,n,x"
                     /mol_type="genomic DNA"
                     /strain="SA20011914"
                     /serovar="56:z10:e,n,x"
                     /sub_species="enterica"
                     /db_xref="taxon:2577863"
                     /plasmid="pSA20011914.2"
     gene            join(3420..3904,1..535)
                     /locus_tag="DOE60_RS23980"
                     /old_locus_tag="DOE60_23970"
     CDS             join(3420..3904,1..535)
                     /locus_tag="DOE60_RS23980"
                     /old_locus_tag="DOE60_23970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001271373.1"
                     /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_011017196.1"
                     /translation="MSAALQYFEENLPRRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKF"
                     /name="replication initiation protein"
     gene            complement(796..1242)
                     /locus_tag="DOE60_RS23985"
                     /old_locus_tag="DOE60_23975"
     CDS             complement(796..1242)
                     /locus_tag="DOE60_RS23985"
                     /old_locus_tag="DOE60_23975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_000184723.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWERRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     gene            1414..2964
                     /locus_tag="DOE60_RS23990"
                     /old_locus_tag="DOE60_23980"
     CDS             1414..2964
                     /locus_tag="DOE60_RS23990"
                     /old_locus_tag="DOE60_23980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001624483.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_032495511.1"
                     /translation="MASYHCTVKAGAKGSALKHADYISRSGEYKSYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKASI
                     PQTAGERKAALVALRSRWADVQNEHLARYGHESRVDHRSLKEQGINRTPEVHLGPVQAA
                     SLNGERIVAIQERRNAERELKTARDAANAIQQEQEQKQKIKAVEPVRSARSPELLLQYR
                     KVMKTVIQGEARLARLGDANPNALKEHKLLQNAKAKKDSLSEWSRRIYEGARYLDKLGR
                     NVVSAQRELRELQEQRNALNGIRGLFRGADKREIDARILEQKSVLETAEHERNEFRNKL
                     QQAESEWDKENAAFKRTEGYKYVGDLDRYREREILAAASLENTRQKVAEEVSVARSQML
                     SLEPELSISGDEKAQMRHELLAEMAQERQQQEEKALRIQRSWAREASRSNERDQDMER"
                     /name="MobA/MobL family protein"
     Typing          2..315
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.46"
                     /coverage="86.0"
                     /evalue="5.15e-150"
     Typing          3658..3904
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.581"
                     /coverage="92.0"
                     /evalue="2.4999999999999998e-116"
     Typing          1415..2961
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.436"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agcgcgtcgt agcatcgata aacattacgg gatggggcga aactgccacc tgttcgaaat
       61 gacgcgcaaa tgggcttaca gggcgattcg tcagggctgg ccagcattct cacagtggct
      121 tgatgccgtg attcagcgtg tcgaaatgta caacgcatcg cttcccgttc cgctttctcc
      181 gcctgaatgt cgggctattg gcaagagcat tgcgaaatac acgcacagga acttcacgcc
      241 ggaaactttc gcacagtatg tggctgatac gcacacgcca gaaattcagg cagcacgcgg
      301 tcgcaagggc gggaaggcca attcgtcaga aaatcagtcg gacaaaggga aaaaaagcgc
      361 cgctgttcgg tggactgcta acgacgacaa acgtcgtagg gcgcttgata tgtatatctt
      421 gggagcgtca acggaagata ttgcagtggc ggttggtgtt agcagccgga ctattcgacg
      481 ctggatggat aattctggag aatggttaac caagaaacaa ataattaaat tttaattaac
      541 agaaaaatga caattacccc ctgtttttgt taatgtgtgg ttaaattcgc ggacatgaac
      601 aagcctatat cagataacag cgcctttcgg cgtctttttg agcagcgggc tttccggcgg
      661 ttttctcctg tcagcccagc aatggtgcgg cttaccgcat gattgaggtg gttgtgctcg
      721 ccgcagtctc atgaccgagc gtagcgagcg aatgagcgag gaagcaccag ggaaacggaa
      781 cgtgaacgga ggctcttacg cactgtcttt ggttagtagc tccttcccgc gtctttccca
      841 ttcctgccat tttgggtggt tgcgcggtag ctctgcgatt cctgcgagtg cgcctaccag
      901 ttcggcagca ctaaactttg gttttccggt tttgctgtcc accagtcctg ccacaatcat
      961 gaggcctgcg gccttgtaga gttcatgatc ccgcgccttt cgttccgccc ttgcggctgc
     1021 cttccgttct gccgctatga ttgccgttac cctggctttt gctgcggctg ctttctctgc
     1081 ggttttttct gcccgtatca gtgcggacaa cgttttttca tccgtcgttg ttcggttttt
     1141 tttctctgcc agtaacacaa gtaatctctg ctgctctgac ggtgatttca gtccgttgat
     1201 gtaggcaatt tttgcactta accactcttc acgatttgtc attcttacct ctgcattttt
     1261 gccgttaatg tgagttgtta ttgtgcataa tatcaccttg tctgcctgcg tgtgagaccg
     1321 taaaatcatc cctgattaat tcagggatgc gcacttagta gtttctctcc ttcgtcgaga
     1381 aactgtgcgc tcctgcggag ggctaaaagg cagatggcaa gctaccattg caccgtcaaa
     1441 gctggagcaa aaggcagtgc cttaaaacat gctgattaca tttccagatc cggcgaatat
     1501 aagagctaca aatcgcggga ggatctggaa ttttcgtcat caggtaacat gccatcatgg
     1561 gcgaagaaaa atcccgcaga gctatggaaa gccgcagatg aatttgaacg aaaaaacggg
     1621 actgcatacc gtgaaattga gatcgcgtta ccgcgtgaac tgacacgcga acaacggata
     1681 gaacttgttg aagatttcgt gcaaaaggaa cttggcgatc gccatgccta ccagtacgcg
     1741 atccacaatc cgccaggtgc aatcgacgga aaggaacagc cacacgcgca tatcatgttt
     1801 tgcgagcgga ttaatgatgg tattgaacgc gatccgcagc aattttttaa acgtgccaac
     1861 agcaaatcac cagaacgggg aggcgcaaaa aaagcgagta ttccccagac agccggagag
     1921 cgaaaagccg cccttgttgc gctgcgttcc cgctgggcag atgtgcagaa tgagcacctt
     1981 gcgcgatacg gtcacgagtc gcgcgtagat catcgttctc tgaaagaaca gggtatcaat
     2041 cgcacgccgg aagttcatct tggccccgtt caggccgcca gtctcaatgg tgagcggatt
     2101 gttgcaatcc aggaacggag gaatgccgag cgggaactca agaccgccag agatgccgca
     2161 aatgccattc agcaggaaca ggagcaaaag caaaaaatca aggcagttga gcctgttcgt
     2221 tcagcccgtt caccggagtt attgcttcag taccgcaagg ttatgaaaac ggtcattcag
     2281 ggagaagcaa ggcttgctcg tttaggggat gccaatccca atgcgctcaa agaacataag
     2341 ctgcttcaga atgcgaaagc aaaaaaagac tctctttccg aatggagcag gcgaatatat
     2401 gaaggggcac ggtatttaga caaactgggg cgtaatgtcg tttccgcaca aagggagctg
     2461 cgggagctac aggaacaacg caatgctttg aatgggattc gtggcctgtt tcggggggct
     2521 gacaaaaggg agattgatgc gcgtattctg gagcaaaaaa gtgtgctgga aaccgctgaa
     2581 catgaaagga atgaattcag gaacaagcta cagcaagccg aatccgagtg ggacaaagaa
     2641 aacgctgctt ttaagcgtac cgagggatat aagtacgttg gggatctgga caggtacaga
     2701 gaacgtgaga ttctggccgc ggcatcttta gagaatacca ggcaaaaggt tgctgaagaa
     2761 gtatccgttg cccgtagcca gatgttatct ctggagcctg aactcagtat atctggagat
     2821 gaaaaagctc aaatgcgaca tgagttactg gcagaaatgg cgcaggaacg gcagcaacag
     2881 gaggaaaagg cactgcgtat acagcgatcc tgggccaggg aggcatcacg tagtaacgaa
     2941 cgtgatcaag atatggagcg ttgaaaatgt agcaatatcg ggattgcgcc ccgaaccccg
     3001 ccaacgtttc acggaacgcg aaaaaattcc gcgtcccgtt caccgttttc tgatgagaaa
     3061 gtttgctgtt ttgacccgtt cgcccttctg aacgctcgaa acagatcgcg catcgctttc
     3121 gtgcatagtt atgcaacgct ctgaaaacga ttctgacgcg tttttctggt ttggcctggt
     3181 gttttcctgt ctttttgcgt tttttgcgtc aggaagcgac tgagggcgtt ttacggggta
     3241 cgtacaacag gagttatggt aaatggatcg ggtttgcggg aagactcgac aggttttgtc
     3301 gttgggggta gtgtaagcga ctgaaaaaca aacgcccctg aaattcgtgt ctatccgcca
     3361 agactgtcac gaaaatacag gggcgatgtc ggtcgataac ctggaaggaa tcgtaacaca
     3421 tgagcgccgc gcttcaatac ttcgaagaaa atttaccccg ccgtccctat cacacggatg
     3481 atctcgcttt tggtcttcgc atctccggca aagggcgtgc gctgcttgcg cggtacatcc
     3541 agcagaacca gcctcatgcg cagttctggc tggtttttga cgttgaccgc gagggggcag
     3601 cgattgactg gagcgaccgg aacgcccccg cgccgaacat caccgttaaa aatcctgtga
     3661 acggacacgc tcacctgctc tatgcactca atatcgccgt gagaaccgcg cctgatgcgt
     3721 cggttaaggc gctgaaatat gccgcagcgg ttgaacgttc gctgtgtgag aaactttgtg
     3781 ctgatgtgaa ctacagcgga ctgatttgca aaaatccgtt ccacctggaa tggcaggtga
     3841 tggagtggcg cgaggaagcc tataccctcg atgaactggc tgattatctc gatttgagcg
     3901 cctc
//
