LOCUS       NZ_OY754833             4066 bp    DNA     circular CON 04-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium isolate
            Reference plasmid pGPT21-001_4, complete sequence.
ACCESSION   NZ_OY754833
VERSION     NZ_OY754833.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA114565966
            Assembly: GCF_963575755.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Typhimurium (Salmonella
            typhimurium)
  ORGANISM  Salmonella enterica subsp. enterica serovar Typhimurium
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1
  AUTHORS   Hendriksen,R., Thornval REBEKKA,N., S?rensen HOLM,L. and
            Lacy-Roberts,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-NOV-2023) DTU National Food Institute, Global Capacity
            Building Group, Bygning 202 DK-2800 Kgs Lyngby, Denmark
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_963575755.1-RS_2024_04_03
            Annotation Date                   :: 04/03/2024 23:57:29
            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)                     :: 5,308
            CDSs (total)                      :: 5,198
            Genes (coding)                    :: 5,044
            CDSs (with protein)               :: 5,044
            Genes (RNA)                       :: 110
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 80
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 53 of 154
            Pseudo Genes (incomplete)         :: 114 of 154
            Pseudo Genes (internal stop)      :: 20 of 154
            Pseudo Genes (multiple problems)  :: 31 of 154
            Pseudo Genes (short protein)      :: 1 of 154
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OY754833.1.
            Reference for the DTU Genomic PT2021.
            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..4066
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /serovar="Typhimurium"
                     /isolate="Reference"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pGPT21-001_4"
     gene            complement(join(2588..4066,1..675))
                     /gene="mobQ"
                     /locus_tag="AABJ75_RS26530"
     CDS             complement(join(2588..4066,1..675))
                     /gene="mobQ"
                     /locus_tag="AABJ75_RS26530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001029350.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029350.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPEDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGESGLAALRSQL
                     LKREEELRRKELEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQHPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMEFHLKTREAPLFAVVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHATERRPDRGWSQGM"
                     /name="mobQ"
     gene            854..1108
                     /gene="mobC"
                     /locus_tag="AABJ75_RS26535"
     CDS             854..1108
                     /gene="mobC"
                     /locus_tag="AABJ75_RS26535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091749.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            1639..2346
                     /locus_tag="AABJ75_RS26540"
     CDS             1639..2346
                     /locus_tag="AABJ75_RS26540"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(318..676)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.222"
                     /coverage="100.0"
                     /evalue="3.97e-172"
     Typing          677..847
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.837"
                     /coverage="97.0"
                     /evalue="2.6299999999999998e-81"
     Typing          1640..2346
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2..762)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.425"
                     /coverage="100.0"
                     /evalue="3.620000000000001e-167"
ORIGIN
        1 cagacgattc tgttcgccgc gttctgtttc gataccgcgt gtttccatcg cacaggcaga
       61 ctttccgagg tgaataccag gcgttttctc aagcccctgt cgctcgtatg aacgatggtc
      121 tatctcttcc tgataaccgg cgttcgccag tgccctgttt gcatggtcag cccatgatgc
      181 acgccacgtc tcggcatgtg tccggtcgtt ccagtccctg acctttccgc cgaacccagc
      241 aggtccgaca gccctcgtgg tcagcatgat gtgcgcatgg ggatttgttt tatccatgtg
      301 atggaacgcc acatcagcaa tcatgccctg actgacaaag ttttctctga caaaggcgag
      361 aacggtttcc cgtgcggcat cctgcggcag ttcacggggg atagcgagtt caatttcccg
      421 cgcaagttgt gagttcttcc ggcgttcggc cttctcaacg gcattccaga gttcggcacg
      481 gttcgtacac caggcagggg ctgtcgcggg ggtcagaatc acagcctcag ccacaccgct
      541 tttgcgggtg tagtcgtgag tcagtccggt acgctcatca agcattagtg aaccagaacg
      601 ataggcagca gaagcaacgg cgctgtagcc gttgcttctg gagatgattt tcatactgag
      661 atgataaatc gccatttctg ccgtaatgcc tttttgcagt tttctttcag ccccgcaggg
      721 cgcacacaat cgaaacggag tggagattgt ataagtgcgc acttcgtgat ttgccgtgca
      781 ttatgccagc tcagttttta aactaccagt gacgcgctaa aatgcgattt ttcaccgcgc
      841 acggagtcac gaaatgagca gaacactcga acagaagatt gccgaagctg aggccagatt
      901 acagcgcctg aaggcgaaga gccggagcct ggacacagcg cagaaggtca ttgtgggtgc
      961 agcattgctg gcaaaggtca gaaagccgga ggaagtgcag ttgcgagctt ggttactcca
     1021 gttcctgaag gcagaggtga cacggcaggc tgatgtgacg cgaatactgc cgctgattaa
     1081 cgagctggag gcgctgccag agcagtgatt gtatcgtccg ctcgccgcag cccagcgacc
     1141 gaacgttagc gagcgagtgg gcgaggaagc ggaagtgaat cagtcgccag gttgagcaca
     1201 tacgcacggt ttttcgacag gtgatatgcg ctgaacccgc atgaatactg gatttccaca
     1261 gggttggagg gggtgtattc ggaattttca atcctgattt tttgcaatac attgttttta
     1321 tttgattttt attttcagca ccccaagtta tccacaggct cgccgttaag tttttagatc
     1381 ttgtttttaa gatcttgttt ttaatacttg ttttagggtc gaaattcctg attaaaaaca
     1441 atgcgttaca cgtgcatagg tgggggaatt taaggtaaag gtgatataat ttaaggtgct
     1501 tgggtgaggt aatttaaggt aaaggtgagg agatttaagg taatattcac aggaaaatgg
     1561 ggggtgaaaa tataattgct caccaatgct aaaggtgata ggtttttatt tcacctcatt
     1621 tttggcctgg tggttaaaat gacatcaaac cctctgatag cctataagtc caatgcgctg
     1681 gttgaggcca gttacaagct aactttacaa gaacagcgtt tcttattgct ctgcataagc
     1741 cgacttaact ccggtactga cgtagcttca cctgaattgc aaaagacaat gaccattaca
     1801 gctgcggaat attttgattc attccctgat atggggcgga aaaatgccga ggttcagcta
     1861 caggaagcga tcgatcgttt gtgggacagg tcgatcattc tcaaggacga cgagaagcgc
     1921 gaggagttcc gctggattca gtatcgggca cagtacgcga ggggagaggg gaaagcacaa
     1981 atcacttttt ctgacgcggt aatgccttat ctgacacagt tgaaggggca attcaccaga
     2041 gtcgtcatta aaaatatttc taatttatca agaagttaca gcataagaat atacgaaatt
     2101 ctccagcaat tccgcagtac tggggaacgt attatcgccc tcgatgattt taaatcatca
     2161 ctgatgcttg atggtaaata taaagatttc aaaacgttaa acagggatct aataaaaccc
     2221 tgtgttgacg aactgaacaa aaaaagcgac ctggctgtaa cggttgagac gatcaaaaag
     2281 gggcgcacgg ttgtagccct gcattttcgc ttcaaggaag acaaacagat caagatgacg
     2341 atctagaatc gattttaagg cacctaaaac gctcactgtc gcgtttttct tgtgtcagga
     2401 atgcgaaggt actattgaag tgaaaagttg cgtcaaaaac gctctgatgc agcaaaaaaa
     2461 gaacccccaa tttttggggg cggaaaaaca aaactatgtt tgcgctatgt gagtgtgctt
     2521 cttgcattca tccctgtcga tgaacatcga cgaacataac acgatgttaa acaaaacaaa
     2581 atattgttca cattccctgt gaccaaccgc gatcaggtct cctctcggtg gcgtgtgttc
     2641 gtgcatcttc ctcgcgccgc cattcgtccc aggtacgatt gaaacccagc gagcggaaca
     2701 gatgatccgg ctgtttttct ggtgtgttga cgacagcaaa aagcggtgcc tcacgggttt
     2761 tcagatgaaa ctccataagt tccggcgcag gtgatatgtg gctgtctgca tcgtgattta
     2821 cggcaacacc ataccctgca taccgtaacc ccttatcggt cagtgcactg atgaccagct
     2881 ggctgttatc ggctgaggga acggcaaacg cgggatacag cgtaccatta agccggacaa
     2941 caccgcccag agagtcatcc acgcccatga ccagcaaaag ctgaagctgg cgggtttccc
     3001 ggtcgacaga actcatgacc ggcatcagcg tcggtggcag acgtccctgc gtaaaatcca
     3061 ccttccttgc tgccagtgat ggcatggctg gctggcggtc ttctccaaga cagaaagact
     3121 ccggccatgt cttcggttgg cggagattgc gggtatgttg cggccatgtc tggcaaacct
     3181 gcgtcagaag ttgctcaaag gtcgcagagg aataaacacg ttgcagtggt ggatgttgac
     3241 cgatttcgct tcggtcacag atataaccac tcctgtcacg cattaaatca acactctcaa
     3301 agatcctggt gcggtatttc tccagctcgt tcccccagag cgtatattct ccgttccggt
     3361 tgtgaagcag aaggtaacag gtcatttccc cgttaccagg catgggagcc tcgccatacc
     3421 ccgtaacgac tgctctcagc acccctgaat ccataacggc attgtcattt tttctgagct
     3481 gctccgcgcg actacgttct gtatcctcca gctccttccg gcgcaattcc tcttcacgtt
     3541 taagcaactg ggatctgaga gctgcaaggc cggattcccc ccactgctgc cactgttttt
     3601 caaatgccgt ctgactcgcg ggaatgtcct gtttctccac cttccggtaa tgctgtcgca
     3661 atttttccat ttgctggctc agagactgga tttttccctg ctcactacgg tattccggtg
     3721 cagcccattg catcagggga atacgggaaa aaccggacga aaacggcgat gattttttca
     3781 ggctggcagc atggctcatc gcttcctttc gttcggtgtt cagctcttcc cagcgtctgc
     3841 gcgtcgcctg catatctgcc atcatcgaca tggcgttact ggtgagtttc catgccgcgt
     3901 tactgtcctc cggcaacgct tcgatgatgt cacgtagtgt gtacgaagtt gcgttgtcag
     3961 gaagcccgat attcagaagg tcagccacac ggcgggctgg ctctgtcagc ccgctgttcc
     4021 tgagttcggt gcgggaaatc tgtatttcca ggttaagcct gttaat
//
