LOCUS       NZ_CP093409             3373 bp    DNA     circular CON 26-MAY-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Agona strain R19.0144
            plasmid pR19.0144_3.3k, complete sequence.
ACCESSION   NZ_CP093409
VERSION     NZ_CP093409.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN26567206
            Assembly: GCF_022670755.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Agona
  ORGANISM  Salmonella enterica subsp. enterica serovar Agona
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3373)
  AUTHORS   Chiou,C.S., Chen,B.H., Wang,Y.W., Hong,Y.P. and Teng,R.H.
  TITLE     Salmonella enterica serovar Agona and Infantis
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3373)
  AUTHORS   Chiou,C.S., Chen,B.H., Wang,Y.W., Hong,Y.P. and Teng,R.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-MAR-2022) Center for Diagnostics and Vaccine
            Development, Centers for Disease Control, Taiwan, No.20, Wenxin S.
            3rd Rd., Nantun Dist., Taichung City 408, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: flye v. 2.9
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 282x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022670755.1-RS_2024_05_26
            Annotation Date                   :: 05/26/2024 05:46:11
            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)                     :: 5,104
            CDSs (total)                      :: 4,984
            Genes (coding)                    :: 4,841
            CDSs (with protein)               :: 4,841
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 143
            CDSs (without protein)            :: 143
            Pseudo Genes (ambiguous residues) :: 0 of 143
            Pseudo Genes (frameshifted)       :: 43 of 143
            Pseudo Genes (incomplete)         :: 115 of 143
            Pseudo Genes (internal stop)      :: 17 of 143
            Pseudo Genes (multiple problems)  :: 27 of 143
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP093409.1.
            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..3373
                     /organism="Salmonella enterica subsp. enterica serovar
                     Agona"
                     /mol_type="genomic DNA"
                     /strain="R19.0144"
                     /serovar="Agona"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:58095"
                     /plasmid="pR19.0144_3.3k"
                     /geo_loc_name="Taiwan"
                     /collection_date="2019"
                     /collected_by="Centers for Disease Control, Taiwan"
     gene            668..1228
                     /locus_tag="MOP55_RS25445"
                     /old_locus_tag="MOP55_25435"
     CDS             668..1228
                     /locus_tag="MOP55_RS25445"
                     /old_locus_tag="MOP55_25435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_242212032.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTKSVKQQLDTLSTTVSMQFSTTEAELARQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            1235..1468
                     /locus_tag="MOP55_RS25450"
                     /old_locus_tag="MOP55_25440"
     CDS             1235..1468
                     /locus_tag="MOP55_RS25450"
                     /old_locus_tag="MOP55_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /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_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1742..2068)
                     /locus_tag="MOP55_RS25455"
                     /old_locus_tag="MOP55_25445"
     CDS             complement(1742..2068)
                     /locus_tag="MOP55_RS25455"
                     /old_locus_tag="MOP55_25445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000776994.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_161400506.1"
                     /translation="MKLSAPVAELSRVRSPSSQLPQPQTVFANTQASAKKGFFFGCLGG
                     CAAEKFLKNTESSCKLNELVSVATDNRLHRNIGEVANLNEPEEARLMAGFFRSTLPDEK
                     SQVK"
                     /name="hypothetical protein"
     gene            complement(2785..2976)
                     /locus_tag="MOP55_RS25460"
                     /old_locus_tag="MOP55_25450"
     CDS             complement(2785..2976)
                     /locus_tag="MOP55_RS25460"
                     /old_locus_tag="MOP55_25450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3025..3363
                     /locus_tag="MOP55_RS25465"
                     /old_locus_tag="MOP55_25455"
     CDS             3025..3363
                     /locus_tag="MOP55_RS25465"
                     /old_locus_tag="MOP55_25455"
                     /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="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_266097495.1"
                     /translation="MKREKMLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTG
                     KLPTLAPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVR
                     EQGVRDDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          2621..2704
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.882"
                     /coverage="97.0"
                     /evalue="4.04e-16"
     Typing          2..1551
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.146"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3008..3360
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="85.593"
                     /coverage="100.0"
                     /evalue="3.72e-59"
ORIGIN
        1 agggggaaag gcggtggaag tggcccggtc gattacctgc tggggcggga gcgtaaccgc
       61 gaaggcgcaa cggtgctccg gggtaacccg gaagaagtgc gggaactcat tgattccacg
      121 ccattttcga agaaatacac gtcaggcgtt ctgtcgttcg cggagaagga gctaccaccg
      181 ggtgaacgcg aaagagtgat gacgagcttt gagcgtgttc ttatgcccgg tctcgaaaaa
      241 gaccagtaca gcattctctg ggtggaacac caggataagg ggcggctcga actgaatttt
      301 gtcatcccga acattgagct acagagcggt aagcgcctcc agccgtacta cgaccgtgcg
      361 gacaggccga ggataaatgc ctggcagacg ctggttaatc atcattacgg gctgcgtgac
      421 ccgaacgcac cggagaacag acggacgctt gtcacgccaa ataatctgcc aaaagcgaaa
      481 caggaggccg cagaagcgat tacacggggt cttgaggctc tttaccatgc cggagcaata
      541 aaaacgcgtc aggatgtcac agaggcgctt acagcggcag gttttgaggt ggtgaggaca
      601 accaaaagca gcatcagtat tgccgacccg gagggggggc ggaatctcag gctaaagggg
      661 gcgctgtatg agcaatcttt tacaaatggg aacagacttc gagaagaaac tgaaagagcg
      721 agccgcttct accgagaaca tgctgaacag cgagttcagg aagctcgaag agtctgtaga
      781 caaggcactg agcttaaaca ggcagaaaat cagagacgct atcagcgaac atacaaaatc
      841 agtgaaacag caactggata cgctgagcac caccgtgagc atgcagttca gtaccacaga
      901 ggccgaactg gcccggcagc agaaaaaact gctctggcgg gtgatcaaag ggcggatact
      961 gtttccggcg ctgaccgcgc tcagcgtcac gggcggcatt ttcctggggt gctgggggct
     1021 gatggagtgg caggaaagca agattgcgaa aaatatcctg actatcagag agcaggaaaa
     1081 cacgctggcg aaactcgagg caaaaacctg gggggtgacg ttcgtcaatg gcgagaacgg
     1141 gaaatttctg gtgttgccgg acggggtgaa aggggaaaac acctggacgg tgggcgacaa
     1201 gaacgccgtg aggctggtca gggagtaaac gagtatgacg gaactggaag ggcatttgct
     1261 gaacgcctta gagcatttgc aacaggacta tatgcggcgg ctgaacgagt gggagagcgc
     1321 cttcgcggaa ttgcagaaga tgcacgaggt tacgcaacgg aacaacgcga tactgaacga
     1381 gcgcgtcgtg atattgagtc agcaggtgca gagattagcc gggcaagtgg atcgcttgag
     1441 tcggttattt atcgcgaaca acagctaagg gatgaacagg agcgtgcccg gtacagacat
     1501 gaggtacagg aacgcgcggc acgggttcgg agtgggccat caatggagat gtgaccgggg
     1561 aagtgacgaa atcttgccat tttgacccgt tcgacggctg gggcgagcga aacaaatcgt
     1621 gtgccgtatt tgtgcatagc tatgcaacat cctgaaaacg catttcacgc gtttttgggg
     1681 attcagccag gggaaaacat ggtttttttg ctttttgagc gtaaagacgt gaaaaatctc
     1741 gttatttcac ttgcgatttt tcgtcgggga gcgtagaacg aaaaaagccc gccattaggc
     1801 gagcttcttc gggttcattg aggtttgcga cctccccaat gttcctgtgg agtctgttgt
     1861 cagtcgcgac agaaaccagt tcattcagtt tgcatgaact ttctgtattc ttcaagaatt
     1921 tttccgccgc acagcctccc agacacccga aaaaaaatcc tttttttgca gatgcttgcg
     1981 tgtttgcaaa gaccgtttgc ggttggggga gctgtgacga cggcgaccgc acgcgtgaga
     2041 gttccgctac cggcgcagag agtttcatcg acagcggaca cctgatgagt tgccacaaaa
     2101 accgtatgta gcgcggctag attggttgag ttagaccttg gcggcagttc ccggtatgtg
     2161 gtggcgtgac gggtgagatg gtgcggcgaa gacgcatacg tcacgcaggc gcgggttctt
     2221 ccactgacgc gccccgtgat cgatggcctt ggctccgtcc ggcatatcga gagcggcaaa
     2281 ctacccgtcc cttcactggg aggggtgagt tgttgccgtt ccctccgacc ttccaccatc
     2341 cagcatatcg cacgatccca tgtgcaccgc tactcctgat aactccagtg caaaaaaaaa
     2401 aacggatctg catcacaacg agagtgatcc caccgctcgc cgcagcccca gcgaccgaac
     2461 gtagtgagcg agtgggcgag gaagcggaag agtcacagag gcaagcattg tgcacttacg
     2521 cgcctgtgcc agtgtccgcg tgtgtgttgt ttatcgggcg cgctgttttt acgcatctgt
     2581 gcggcttttt actcctgaca tggtgcactt cccatccact ctgcaccgat gcaaaataag
     2641 gaaagccagt atacacatcg ctatcgctct gtgaactggg tcagggctgc gccccgacac
     2701 ccgcactgac gcgccctggc gggcttgtct gctcccggca tccgctcaca ggcaagctgt
     2761 gaacgtctcc gggagctgca tgtttcagtt gctttcaccg tcatcgccga agcgtgcgag
     2821 gcaactgcgg tagagttcgt cggcgtggtc gtgaagtgat tcgcagatgt ctgcctgttc
     2881 gtccgcgtcc agatcgttga gtttttccag cagggttagc gtctggcttc tgataaagcg
     2941 agccatgtta agggctgttt tttcctgttt ggtcatagtc ttaaggctcc ttgtatgagg
     3001 gatttgttag ggggaatgat accgatgaaa cgcgagaaga tgctcacgat acgggttacc
     3061 gatgaggagc acgcccggtt actggaacgc tgcgagggta aacgactggc ggaatggatg
     3121 cggcgggtct gtctggggga gccggttgca cgcacaggaa aactgccgac actggcaccg
     3181 ccattgctgc ggcatctggc tgccatcggg aacaacctga accagacagc ccggaaggtg
     3241 aacagcggcc agtggtcttc gattgaccgg gttcatgtgg tggccgcact gatggccatc
     3301 gagggtgaat tgcgccagtt gcggcaggct gtcagggaac agggggtacg ggatgatagt
     3361 taaatttcat gcc
//
