LOCUS       NZ_CP034825             3782 bp    DNA     circular CON 30-JUL-2023
DEFINITION  Salmonella sp. SSDFZ54 plasmid pTB506, complete sequence.
ACCESSION   NZ_CP034825
VERSION     NZ_CP034825.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10689135
            Assembly: GCF_004010735.1
KEYWORDS    RefSeq.
SOURCE      Salmonella sp. SSDFZ54
  ORGANISM  Salmonella sp. SSDFZ54
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3782)
  AUTHORS   Tang,B., Chang,J., Zhang,L., Liu,L., Xia,X., Hassan,B.H., Jia,X.,
            Yang,H. and Feng,Y.
  TITLE     Carriage of Distinct mcr-1-Harboring Plasmids by Unusual Serotypes
            of Salmonella
  JOURNAL   Adv Biosyst 4 (3), e1900219 (2020)
   PUBMED   32293141
REFERENCE   2  (bases 1 to 3782)
  AUTHORS   Tang,B., Chang,J., Ma,Y., Zhang,L. and Xia,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JAN-2019) Institute of Quality and Standard for
            Agro-products, Zhejiang Academy of Agricultural Sciences, 198
            Shiqiao Road, Hangzhou, Zhejiang 310021, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. NOV-2018
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 320.0x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 10:35:31
            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)                     :: 5,141
            CDSs (total)                      :: 5,019
            Genes (coding)                    :: 4,864
            CDSs (with protein)               :: 4,864
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 155
            CDSs (without protein)            :: 155
            Pseudo Genes (ambiguous residues) :: 0 of 155
            Pseudo Genes (frameshifted)       :: 53 of 155
            Pseudo Genes (incomplete)         :: 113 of 155
            Pseudo Genes (internal stop)      :: 33 of 155
            Pseudo Genes (multiple problems)  :: 39 of 155
            Pseudo Genes (short protein)      :: 1 of 155
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP034825.1.
            Bacteria and source DNA available from Biao Tang.
            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..3782
                     /organism="Salmonella sp. SSDFZ54"
                     /mol_type="genomic DNA"
                     /strain="SSDFZ54"
                     /isolation_source="feces"
                     /db_xref="taxon:2500542"
                     /plasmid="pTB506"
                     /geo_loc_name="China:Zhejiang"
                     /collection_date="2018-03"
     gene            638..865
                     /locus_tag="EOS97_RS26560"
                     /old_locus_tag="EOS97_26560"
     CDS             638..865
                     /locus_tag="EOS97_RS26560"
                     /old_locus_tag="EOS97_26560"
                     /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_206282062.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAFMFEAYRH
                     IVSDTNQARRSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(913..1101)
                     /locus_tag="EOS97_RS26565"
                     /old_locus_tag="EOS97_26565"
     CDS             complement(913..1101)
                     /locus_tag="EOS97_RS26565"
                     /old_locus_tag="EOS97_26565"
                     /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(1714..3258)
                     /locus_tag="EOS97_RS26570"
                     /old_locus_tag="EOS97_26570"
     CDS             complement(1714..3258)
                     /locus_tag="EOS97_RS26570"
                     /old_locus_tag="EOS97_26570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008926622.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0007165 - signal transduction [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing methyl-accepting chemotaxis
                     protein"
                     /protein_id="WP_049134876.1"
                     /translation="MRNNQPVTNNEFFFDDDATLVSTTDQESLITYANDAFIHVSGFSE
                     SELHNQPHNIVRHPDMPKAAFADMWATLQQGKPWSALVKNRRKNGDFYWVRSNVTPVVR
                     DGITRGYMSVRTKPSTGEINYANNLYNKLLSDSGRYYSFKNGMIVRKGWRRLLTLDKTI
                     PIRWRIRLYLSSLLPLFIIANWLLGIDSITSLISSSILTVALLAMIFIFDRKISAPIEN
                     ISKQAINVVTGSCHKIEQSERVDEIGMTLRSISQLGLMFRWLVNDVSNQASVVLKKSSD
                     IAQNNKSLSKHTENSNINIQQTAAAMNELIATVKSNAETSQEVKEISEKTQDTALNSEK
                     IMVKMMEMMSEISDSSKRIATITSVIDSIAFQTNILALNAAVEAARAGEQGKGFSVVAG
                     EVRHLAQRSAKAANEIKELIESSSNKVTAGTEYTEKTGKSMGEVLSKVKGMAELITQIS
                     AATSEQFIALQEISSAVENLDNISNKNSARVSQNAMASTELAHQANRLSDAINVFR"
                     /name="PAS domain-containing methyl-accepting chemotaxis
                     protein"
     gene            complement(3594..3707)
                     /locus_tag="EOS97_RS26575"
                     /old_locus_tag="EOS97_26575"
     CDS             complement(3594..3707)
                     /locus_tag="EOS97_RS26575"
                     /old_locus_tag="EOS97_26575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_071602595.1"
                     /translation="MHEPPVQSDCCAFSGNYRLESNPERHDKTPLAAATGN"
                     /name="replication initiation protein"
     Typing          287..460
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.571"
                     /coverage="100.0"
                     /evalue="1.23e-64"
     Typing          complement(2..190)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.75"
                     /coverage="89.0"
                     /evalue="9.25e-75"
     Typing          complement(3595..3782)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.789"
                     /coverage="80.0"
                     /evalue="4.68e-80"
ORIGIN
        1 gcggattgac accggtaaac cgaaaggcag gaacaggaga gcgcacgagg gagccaccag
       61 ggggaaacgc ctggtatctt taagtcctgt cgggtttcgc caccactgat ttgagcgtca
      121 gatttcgtga tgcttgtcag gggggcggag cctatggaaa aacggcaacg ccgtggcctt
      181 gcttcttctt tgctaagtat cgccctggca tcttccagga aatttccgcc cagtttgtaa
      241 gcccacaccg ctcgccgcag ccgaacgacc gagcgcagcg agtcagtgag cgaggaagcg
      301 gaatatctcc tgtctcgtat attctgctga cgcgccggtg ctgccttttt cctccttcca
      361 catgaagcac ttcactgacc tccgcatccg tgtcgacata ttaagccagt atacactccg
      421 ctagcgctac gtgactggtt cagggctgcg ccccgacacc cgctaaaagc actgacgcgc
      481 ctgcggcttg cccaaccccg cgccgtccgg gaaagaattt cccgatcgac ccgacgtttc
      541 tgtttacctg tgatgttaac gtttggatct ttttcccggg tttacctatt ttcttctaat
      601 gaagcgttca cagctgacgt taatagatgg gtgcttcatg tttggttttt caccaggaga
      661 acttatgaac ctttgccccg atgaacgtct gctctttgtg cggatgattt ccgctatgct
      721 tcgccgttcg ggcggtgatg cgggtgcttt tatgtttgag gcgtatcgcc atattgtgtc
      781 cgataccaat caagctcgtc gttcctacat gctcgacctg ctcgaaagcg tcaggcatga
      841 ctatgtacac ggtggatata catagttgcc ctggatacgc ttttcgtcta agtgagcgtt
      901 cttttcgtct ctttattcgc cgtcctgtat accgaagcgt gcgctcagct tctgataaag
      961 cgcttcagcc tgttcgtgca ttcgctcaca gtcggctgcc tcgtcatcaa gatcgagcac
     1021 gtcgagtttt tcgagcagca gcagcgactg cgcccggata aattttgcca tgttcagtgc
     1081 ggctgattcc tgttttgtca tacggctttt tcccggtttt atggtgatcg cagactgaaa
     1141 tcttacttca ttcacttgag tgcatagcca tgcaggtacg cagaaatcat caggggcgtt
     1201 ttttctcgat atgggcacag aaaggtgtat gtttcaggtc ggagtcctca gaaacgctct
     1261 cagagcctct caggcggtgc acgcaacgga tgttatggta aattcagctg attgtatgca
     1321 gcataatcgt ttttgaactt gaaggtctga tgtttattca gatatttttc tctacctctt
     1381 taatcgcgtt aagtatcgct aaatgttcac tttctgaatg tccaccttct tggagtttac
     1441 ggtttaaaat atcaaggata gcaagtagtg aaacgcagcg ttgttgtgat agtaattcga
     1501 aaatcgcata gcttatcaac agcttctttt aataaaagtc ttgcttcgct ttactctttt
     1561 ttaagagttc cctttccttt gttaaaccta tagcgcagtt atactttatt ctaaacagat
     1621 ggttttttgt gttatgtgtc gttgtttttt taaaaagtta atgatttttt agaatcccca
     1681 ctccgggcta agtgggggtt ctatagctag gccttatcta aaaacattga ttgcatctga
     1741 caaacggttt gcttggtgcg caagttcagt tgatgccatt gcattttgcg atacgcgagc
     1801 tgagttctta ttagatatat tgtctaagtt ttccacagcg gagctaattt cctgtaatgc
     1861 aataaactgt tcagatgtcg cagcgcttat ttgtgtgatc aattctgcca ttccttttac
     1921 tttggataaa acttcaccca tggattttcc tgttttttct gtgtactcgg ttccggcagt
     1981 aactttatta gaactgcttt ctattaattc ttttatttca tttgcggctt tggcgctacg
     2041 ttgtgcaaga tgtcgaactt cacctgcaac aacagaaaaa cctttaccct gctctcccgc
     2101 gcgtgctgct tccactgctg cattaagagc tagtatgtta gtctgaaacg ctatgctatc
     2161 aatcacactg gttatagttg ctattctttt tgaactatct gagatttcag acatcatttc
     2221 catcattttt accatgattt tttcgctatt taacgcagtg tcttgagttt tttcagaaat
     2281 ttctttgact tcttgtgatg tttcggcgtt ggattttact gttgcaatca attcattcat
     2341 ggcagcagcg gtttgctgaa tgtttatatt tgagttttct gtgtgcttgc ttaatgattt
     2401 gttattttgt gctatgtcgg agcttttttt taataccaca cttgcctgat tgcttacatc
     2461 attaactaac catcggaaca taagtcctaa ctggcttatt gatctgagag tcatccctat
     2521 ttcgtcaacc ctttcacttt gttctatctt atggcaagag ccagttacta catttatggc
     2581 ttgtttcgat atattctcta tcggtgcgga tatctttcta tcgaaaatga aaatcattgc
     2641 aagtagtgca actgttaata ttgatgagga aattaatgat gtgattgaat ctatccctag
     2701 caaccaattt gcaataataa aaagtggtag caaggatgat aaatagagtc tgattcgcca
     2761 gcgtattgga attgtcttat ctagtgttaa taaccttctc catccttttc ttactatcat
     2821 tccattttta aatgaataat atctcccgct gtcacttaag agtttgttat ataaattatt
     2881 tgcataattt atctcgcctg ttgatggttt agtgcgcaca gacatatatc cgcgtgttat
     2941 tccatcacgg actacggggg taacgttaga gcgaacccaa taaaagtccc catttttacg
     3001 acggtttttg actagagcag accacggttt accctgctga agggttgccc acatatccgc
     3061 aaaagctgcc tttggcatgt cagggtgccg gacgatatta tgtggttgat tatgtagttc
     3121 actttcacta aagccgctaa cgtgaataaa tgcatcattc gcataggtta tgaggctttc
     3181 ttgatctgtc gttgacacta aggtggcatc atcatcaaaa aaaaattcat tatttgtaac
     3241 aggttggttg tttcgcatag tgtgccttac atttttgtag ttagactact catcgtttgc
     3301 agttgttttc ggaaaacggc gataggcact ttagtgttat acctatcatt aatgcaggga
     3361 aatgaaaggg aagtttgata ttgatttgtt ttatcttctt gagatccttt acaagtcgtc
     3421 gtaatctcct ttcttgtaaa cgaaaaaacc gccttgctgg gcggtttttt cgaaggttct
     3481 cagagcagca actctttgaa ccaaggtaac tggcttggag gagcgcagtc accaaaactg
     3541 ttcgtttagt ttagccttaa ccgacgcata acttcaagac taactcctct aaatcagtta
     3601 ccagtggctg ctgccagtgg cgttttgtcg tgtctttccg ggttggactc aagacgatag
     3661 ttaccggaaa aggcgcagca gtcggactga acggggggtt cgtgcataca gtccagcttg
     3721 gagcgaactg ccttcccgga accgagtgtc aggcgtggaa tgagataaac gcggccataa
     3781 ca
//
