LOCUS       NZ_CP060521             3830 bp    DNA     circular CON 15-OCT-2023
DEFINITION  Salmonella enterica strain SLR1_7627 plasmid pS7627-4, complete
            sequence.
ACCESSION   NZ_CP060521
VERSION     NZ_CP060521.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15666300
            Assembly: GCF_014334235.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3830)
  AUTHORS   Kuleshov,K.V., Pavlova,A.S., Mikhaylova,Y.V., Yanushevich,Y.G.,
            Speranskaya,A. and Podkolzin,A.T.
  TITLE     Genetic determinants of drug resistance in non-typhoid Salmonella
            enterica isolates in Russia
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3830)
  AUTHORS   Kuleshov,K.V., Pavlova,A.S., Mikhaylova,Y.V., Yanushevich,Y.G.,
            Speranskaya,A. and Podkolzin,A.T.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-AUG-2020) Molecular Epidemiology, Central Research
            Institute of Epidemiology, Novogireevskaya 3A, Moscow 111123, Russia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: AUG-2020
            Assembly Method                   :: Unicycler v. 0.4.2
            Assembly Name                     :: CRIE_SLR1_7627
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology             :: Illumina HiSeq, MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/15/2023 04:34:20
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,928
            CDSs (total)                      :: 4,807
            Genes (coding)                    :: 4,681
            CDSs (with protein)               :: 4,681
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 126
            CDSs (without protein)            :: 126
            Pseudo Genes (ambiguous residues) :: 0 of 126
            Pseudo Genes (frameshifted)       :: 59 of 126
            Pseudo Genes (incomplete)         :: 84 of 126
            Pseudo Genes (internal stop)      :: 18 of 126
            Pseudo Genes (multiple problems)  :: 30 of 126
            Pseudo Genes (short protein)      :: 1 of 126
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060521.1.
            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..3830
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="SLR1_7627"
                     /db_xref="taxon:28901"
                     /plasmid="pS7627-4"
                     /geo_loc_name="Russia"
                     /collected_by="CRIE"
     gene            complement(join(3061..3830,1..1135))
                     /locus_tag="H9L30_RS24475"
                     /old_locus_tag="H9L30_24475"
     CDS             complement(join(3061..3830,1..1135))
                     /locus_tag="H9L30_RS24475"
                     /old_locus_tag="H9L30_24475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003839290.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="methyl-accepting chemotaxis protein"
                     /protein_id="WP_052895204.1"
                     /translation="MSWAYRISMQMKLFIALFPLLLALVWFAGSGIVSRINTEQQMNTI
                     GQLTTLARSAGDVVHQLQSERGMSAGFIGARGQKFRDDLAAQRQLTDKVLATFKRLLTD
                     TNKDLLQGNIAAPLKTFNESIQFLDSTRTAISELTIDSPKASQFYTQTISDVLKFVGGM
                     GHLSTSGSMVNELAAYYSLLNLKEQAGVERALLSNIFSMDRFDDGQFSMFSDVVGQQDA
                     WLTAARSFSTPVQAAELDKSLQSAEATRALELRETAFNKAAEGGFGVNPTDWFNLQTQR
                     IETLQKVENRAVDALQEHAALLAHNARVDWQSFLVISLVALLIAIAFAVMVARSIQQQL
                     NGTLKTIAEMDGDLTRRLDVPGSDELSALNRAYNQAIENIQHIVQEIKSGAVVLRSASS
                     DIAAGNQDLAQRTDEQAASIVETAASMEQISTAITQTADNASEAERLIHSMERDVLEAN
                     RVSNEASQSMAEIRSSSEQISQIVASIDEISFQTNLLALNAAVEAARAGELGKGFAVVA
                     TEVRNLSQRCAREASQIRELINQNMDKIGEGVARVTASGTALKAAAENTGRMKQYVSDI
                     ARAANEQSLGVSQVHQALNQLEQVTQQNAALVSQAASASQMLDGQSEAMSTLVDRFIV"
                     /name="methyl-accepting chemotaxis protein"
     gene            complement(1441..1590)
                     /locus_tag="H9L30_RS24880"
     CDS             complement(1441..1590)
                     /locus_tag="H9L30_RS24880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001333247.1"
                     /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_077464408.1"
                     /translation="MHEPPVQSDCCAFSGNYRLESNPERHEKSPLAAATGKQDVREMYR
                     EFLK"
                     /name="replication initiation protein"
     gene            2269..2535
                     /locus_tag="H9L30_RS24480"
                     /old_locus_tag="H9L30_24480"
     CDS             2269..2535
                     /locus_tag="H9L30_RS24480"
                     /old_locus_tag="H9L30_24480"
                     /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_213069224.1"
                     /translation="MKRSQLTLIDGCFMFGFSPGELMNLCPDERLLFVRMISAMLRRSG
                     GDAGAVMFEAYRHIVSDTNQARRSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(2583..2771)
                     /locus_tag="H9L30_RS24485"
                     /old_locus_tag="H9L30_24485"
     CDS             complement(2583..2771)
                     /locus_tag="H9L30_RS24485"
                     /old_locus_tag="H9L30_24485"
                     /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"
     Typing          1953..2125
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.379"
                     /coverage="100.0"
                     /evalue="9.47e-61"
     Typing          complement(1432..2028)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.211"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tctcaatcgc ttggttatag gcacggttca gggctgagag ctcgtcgctg ccggggacgt
       61 caagacgacg tgtcaggtcg ccgtccatct ctgcgatggt tttcagcgta ccgttcagtt
      121 gctgctggat actgcgtgcc accatcaccg caaaggcgat agcaatcagt agggcaacca
      181 ggctgattac caggaaggac tgccagtcga cacgggcatt gtgggcaagc agcgcagcat
      241 gttcctgcaa ggcatccacc gcgcgatttt ccaccttttg cagcgtttca atacgctggg
      301 tctgaaggtt aaaccagtca gtcgggttga ctccaaatcc gccttcggcg gctttattaa
      361 aagccgtctc ccgcagttca agagcacgag ttgcttcagc ggactgaaga gatttgtcca
      421 gctcagccgc ctgcacaggt gtgctaaagc tgcgagctgc cgtcagccag gcatcctgct
      481 ggcctaccac atcgctaaac atgctgaact ggccgtcgtc aaagcgatcc atcgagaaga
      541 tattggacag cagcgcacgt tctacaccag cctgctcctt caaattcaag agactataat
      601 aagccgccag ttcgttcacc atcgagcctg aggtgcttaa atgccccatc ccgccgacaa
      661 acttcagcac gtcagagatg gtttgggtat agaactgact cgcttttggt gaatcgatag
      721 ttaattcgct gatggcggta cgggttgagt cgagaaactg aatactttca ttaaacgttt
      781 tcaggggggc ggcaatattt ccctggagta aatccttatt cgtatcggtc agcaaccgct
      841 taaatgttgc cagcaccttg tcggttaact gccgctgggc agctaagtca tcgcgaaact
      901 tttggccgcg cgcgccgata aatccagcgc tcattccacg ttcgctctgg agttgatgca
      961 ccacatcacc cgcgctgcgg gcgagcgtgg tgagctgtcc aatggtgttc atctgctgtt
     1021 cggtattgat acggctgaca atacccgaac cggcgaacca gaccaaggca agcagtagcg
     1081 ggaataatgc aataaacaac ttcatttgca ttgaaatacg ataagcccat gacatatcga
     1141 tactttcctt actttcttga gggatcgcag gagtatcggt agatacatgc ataaacttta
     1201 tagtttattg ttgggggaac gggcaccaca ttcggcagtg gcgctggtag caatccataa
     1261 aggatcttct tgagatcctt tgacgatcgt cgtaatctct tgctctgtaa acgaaaaaac
     1321 cacccttgca ggtggttttt cgaaggttag ataatcctgg cagattctct aaccgtggta
     1381 acagtcttgt gcgagacatg tcaccaaatt tgtccttcta gtgtagcctc agtcaggcca
     1441 ctacttcaag aactctcgat acatctctcg cacatcctgt ttaccagtgg ccgctgccag
     1501 tggcgatttt tcgtgtcttt ccgggttgga ctcaagacga tagttaccgg aaaaggcgca
     1561 gcagtcggac tgaacggggg gttcgtgcat acagtccagc ttggagcgaa ctgccttccc
     1621 ggaactgagt gtcaggcgtg gaatgagata aacgcggcca taacagcgga atgacaccgg
     1681 taaaccgaaa ggcaggaaca ggagagcgca cgagggagct accaggggga aacgcctggg
     1741 atctttatag tcctgtcggg tttcgccgcc actgatttga gcgtcagatt tcgtgatgct
     1801 tgtcaggggg gcggagccta tggaaaaacg gcttcgccgc ggccttaccg tttccctgtt
     1861 aagtttcttc ctggcatctc ccaggaaatt tccgccccat tcgtaatccc gcaccgctcg
     1921 ccgcagccga acgaccgagc gcagcgagtc agtgagcgag gaagcggaat atctcctgtc
     1981 tcatatattc cgcttacgct ctgctgctgc attttcctcc tgccacatga agcacttcac
     2041 tgattcccgc acccgtgcct acataataag ccagtataca ctccgctagc gctacgtgac
     2101 tggttcaggg ctgcgccccg acacccgcta aaagcactga cgcgcctgcg gcttgcccaa
     2161 ccccgcgccg tccgggaaag aatttcccga tcgacccgac gtttctgttt acctgtgatg
     2221 ttaacgtttg gatctttttc ccgggtttac ctattttaat gaagcgtaat gaagcgttca
     2281 cagctgacgt taatagatgg gtgcttcatg tttggttttt caccaggaga acttatgaac
     2341 ctttgccccg atgaacgtct gctctttgtg cggatgattt ccgctatgct tcgccgttcg
     2401 ggcggtgatg cgggtgctgt tatgtttgag gcgtatcgcc atattgtgtc cgataccaat
     2461 caagctcgtc gttcctgcat gctcgacctg ctcgaaagcg tcaggcatga ctatgtacac
     2521 ggtggatata catagttgcc ctggatacgc ttttcgtcta agtgagcgtt cttttcgtct
     2581 ctttattcgc cgtcctgtat accgaagcgt gcgctcagct tctgataaag cgcttctgcc
     2641 tgttcgtgca ttcgctcaca gtcggctgcc tcgtcatcaa gatcgagcac gtcgagtttt
     2701 tcgagcagca gcagcgactg cgcccggata aattttgcca tgttcagtgc ggctgattcc
     2761 tgttttgtca tacggctttt tcccggtttt atggtgatcg cagactgaaa tcttacttca
     2821 ttcacttgag tgcatagcca tgcaggtacg cagaaatcat caggggcgtt ttttctcgat
     2881 atgggcacag aaaggtgtat gtttcaggtc ggagtcctca gaaacgctct cagagcctct
     2941 caggcggtgc acgcaacggg agttatggta aatcctagtt atttgcaggc ataaaaaagc
     3001 cgccttttag gcggtttttt ctgattgtaa gttatcaaga ccggatgctg aacggcagta
     3061 tcagacaata aagcgatcga ccagcgtgga catcgcttca gactggccgt ccagcatctg
     3121 gctggcgctc gccgcctgag agaccagcgc tgcgttttgc tgagtgacct gctccagctg
     3181 attcagtgcc tgatgcacct gcgacacgcc aagcgactgc tcattcgccg cacgggcaat
     3241 atcgctcacg tactgtttca tccgcccggt attttccgcc gctgctttca gcgcggtgcc
     3301 ggacgcggtg actcgtgcta ccccttcgcc aatcttatcc atattctggt taatcagctc
     3361 acggatctga ctggcctctc gtgcacagcg ctgggaaagg ttacgcacct ccgtcgccac
     3421 taccgcaaag cctttgccaa gctcaccggc acgtgccgct tcaacggcgg cgttaagcgc
     3481 cagcaagttg gtctggaaag aaatctcatc aattgacgca acaatctggg aaatctgctc
     3541 gctggaagaa cgaatttccg ccatgctctg actggcctcg ttagagacgc gattagcttc
     3601 cagtacgtcc cgctccatcg aatgtatcag acgctccgcc tcgctggcgt tatcggcggt
     3661 ctgggtgatc gcagtagaaa tctgctccat gctggcggcc gtttccacaa tcgatgccgc
     3721 ctgttcatcc gtacgctggg ccagatcctg attaccggca gcgatatcac tactggcgct
     3781 acgcaacacc accgcaccgg acttaatttc ttgcacgata tgctgaatat
//
