LOCUS       NZ_CP129389             4779 bp    DNA     circular CON 19-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Infantis strain R13.1986
            plasmid pR13.1986_4k, complete sequence.
ACCESSION   NZ_CP129389
VERSION     NZ_CP129389.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10434137
            Assembly: GCF_030435995.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Infantis
  ORGANISM  Salmonella enterica subsp. enterica serovar Infantis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4779)
  AUTHORS   Chiou,C.-S., Chen,B.-H., Wang,Y.-W. and Teng,R.-H.
  TITLE     Salmonella enterica serovar Infantis
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4779)
  AUTHORS   Chiou,C.-S., Chen,B.-H., Wang,Y.-W. and Teng,R.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JUL-2023) 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 Date                     :: 29-JUN-2023
            Assembly Method :: flye v. 2.9.2; medaka v. 1.8.0; polypolish v.
            0.5.0; POLCA v. 4.1.0
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 683.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/14/2023 16:09:34
            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)                     :: 4,941
            CDSs (total)                      :: 4,819
            Genes (coding)                    :: 4,688
            CDSs (with protein)               :: 4,688
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 131
            CDSs (without protein)            :: 131
            Pseudo Genes (ambiguous residues) :: 0 of 131
            Pseudo Genes (frameshifted)       :: 51 of 131
            Pseudo Genes (incomplete)         :: 91 of 131
            Pseudo Genes (internal stop)      :: 28 of 131
            Pseudo Genes (multiple problems)  :: 35 of 131
            Pseudo Genes (short protein)      :: 1 of 131
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP129389.1.
            Bacteria and source DNA available from Chien-Shun Chiou (CDC,
            Taiwan).
            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..4779
                     /organism="Salmonella enterica subsp. enterica serovar
                     Infantis"
                     /mol_type="genomic DNA"
                     /strain="R13.1986"
                     /serovar="Infantis"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:595"
                     /plasmid="pR13.1986_4k"
                     /geo_loc_name="Taiwan"
                     /collection_date="2013"
                     /collected_by="Centers for Disease Control, Taiwan"
                     /subtype="32"
     gene            1..321
                     /locus_tag="ETE97_RS24655"
                     /old_locus_tag="ETE97_24655"
     CDS             1..321
                     /locus_tag="ETE97_RS24655"
                     /old_locus_tag="ETE97_24655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_023157587.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGGD
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            530..>961
                     /locus_tag="ETE97_RS24660"
                     /old_locus_tag="ETE97_24660"
                     /pseudo=""
     CDS             530..>961
                     /locus_tag="ETE97_RS24660"
                     /old_locus_tag="ETE97_24660"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            999..1484
                     /locus_tag="ETE97_RS24665"
                     /old_locus_tag="ETE97_24665"
     CDS             999..1484
                     /locus_tag="ETE97_RS24665"
                     /old_locus_tag="ETE97_24665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749519.1"
                     /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_301557928.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEKSVRAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            1488..1697
                     /locus_tag="ETE97_RS24670"
                     /old_locus_tag="ETE97_24670"
     CDS             1488..1697
                     /locus_tag="ETE97_RS24670"
                     /old_locus_tag="ETE97_24670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014538403.1"
                     /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_057205452.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2469..2870)
                     /locus_tag="ETE97_RS24675"
                     /old_locus_tag="ETE97_24675"
     CDS             complement(2469..2870)
                     /locus_tag="ETE97_RS24675"
                     /old_locus_tag="ETE97_24675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505260.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001505260.1"
                     /translation="MIDIQKLISWLGVEGAKAGLDKSEMTNAELIESFGNLLPKNPSKL
                     KRSDLVEEIILATRRMTHKSVEELMEMSKEDLYSYFHDQKYSRKELLDLLYTLEIRPGS
                     SAKKNLTEFTISEISDIGMYRRVAKGNHA"
                     /name="hypothetical protein"
     gene            complement(2867..3751)
                     /locus_tag="ETE97_RS24680"
                     /old_locus_tag="ETE97_24680"
     CDS             complement(2867..3751)
                     /locus_tag="ETE97_RS24680"
                     /old_locus_tag="ETE97_24680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505259.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WP_001505259.1"
                     /translation="MAVTVGFISEKGGVGKTTSCYHIAEGLSRFHEKRVLVIDADYQRG
                     GITGRFFPKLIENFGNQAPQGTTLFNKYQQLYSAAQQTTDIDIIKFNSGIDVIPADPRL
                     STVSTDKLPSTNNIRSNNAILLQHLKTISAVLSPIADNYDYILIDSHPEVSDVMRSIIY
                     ASDYCVSPVKLDRQSSIGVATVIGEINNVNEDIEMLRKALQVGDSYKDTVFAGAMGMMA
                     REYAEELKQTEQYEYNRLRQAGDIFKHYITEGDGLRVAAAERVSVYDVQISNAYKQASQ
                     FKNLTIEFMRTCR"
                     /name="ParA family protein"
     gene            complement(3999..4130)
                     /locus_tag="ETE97_RS24685"
                     /old_locus_tag="ETE97_24685"
     CDS             complement(3999..4130)
                     /locus_tag="ETE97_RS24685"
                     /old_locus_tag="ETE97_24685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001505258.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKAPLAAAMSKGVYKIY"
                     /name="hypothetical protein"
     Typing          4493..4666
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.857"
                     /coverage="100.0"
                     /evalue="2.61e-71"
     Typing          complement(3983..4569)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.892"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          312..1816
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.825"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgctcacga tgtgggtgac ggaagacgaa caccggcggc tgctcgagcg gtgcgacggc
       61 aggcagctgg cggcgtggat gcgtcagacc tgcctcgatg agaagccggc gcgtgccggc
      121 agactgccat cgatatcccc ggcgctgctg cgccagcttg caggtatggg taacaacctg
      181 aaccagatcg cccggaaagt gaatgccggt ggtgccggtc atgaccgggt gcagattgtg
      241 gccgccctga tggcaatcga cgcgggactg gagcggctgc ggcatgcggt gctggaaaaa
      301 ggggggggtg atgatcgtta aatttcatcc ccggggacgc ggtggtggtg ccggtccggt
      361 ggattacctg ctgggaaaag accggcagcg cgagggggcg accgtgctgc agggaaaacc
      421 ggaggaagtc cgggagctta tcgatgcctc gccgtatgcg aaaaagtaca cctccggcgt
      481 actgtcgttc gcggaggctg aactgccgcc cgggcagcgg gagcagatca tggccagctt
      541 tgagcgggtt ctgatgcccg ggctcgataa agaccagtac agcattctgt gggtggagca
      601 caccgacaag gggcggctgg aactgaattt cctgatcccc aacactgaac tgctgaccgg
      661 gaaacgcctg cagccgtatt acgatcgagc cgatcggccg cgcatcgatg cctggcagac
      721 cgtggtgaac ggcagactgg ggctgcatga tccaaacgcc ccggagaacc ggcggctact
      781 ggtcacgccg tccgcactgc cgaaaacgaa gctggaagcc gctcaggcga ttacacgagg
      841 gttgctggcc ttagcctcat ccggggagct caaaacgcgc gaggacgtca caggggcgct
      901 cacagcggca ggttttgagg tggtccgcac cacaaaaaac agtatcagca ttgccgaccc
      961 ggacgggggg cgaaacatcc gactgaaggg agccatttat gagcagtctt ttagcgctgg
     1021 cgaaggactt ggagcagcaa tcgaaagcgc agcagcagag taccggcgag atgctgaaag
     1081 ccgcattcag cgagcacgag aagtctgtca gagcggaact gagcgcaagc gcgaagagaa
     1141 tcagcgacgc catcagcgcc cacgagcagg gtatgaccgc ggcgatgcag tcgaaccgcc
     1201 tgagcgtgct gcgtatggtc ggccggacgt ggctgaccat cactctggtc tcggtactgc
     1261 tgatcgccac gagcgggagc attctgtggt ggcaggggca gcagatcacc ggaaattacc
     1321 agactatccg ggcgcaggag cggacgcagg ccatgctgtc ggagaagaac cacggcgtgc
     1381 agctgtcgct ctgcggggag aagaaactgt cctgcgtcaa agtgaacccg aaagcgggag
     1441 cttacgggga ggaagggaac tggatggtac tggagaggaa atagctcatg acggaactgg
     1501 aaaaacagtt gctgaccgca ttagagcagc tacatcagga ctactcgcaa aggctggacg
     1561 agtgggagag cgccttcgcg gaatggcaga agatgtctgg tcttatgcaa cgggagaacg
     1621 cggcgctgaa cgagcgcgtg acgcgcttga gtcagcaggt ggcgaacttg agcaggcaat
     1681 tacagcgttt gagctagtag tgcagcggca tgaaatggcg gtggccgccg aacgggcata
     1741 cgagcagcga cagcacgaaa aagagctggc ggaagcccgt tcccgtcagc ggagctataa
     1801 cggtccgacg ctgggctgac aggcttcacc agtgacaaac cccacgaaga agggctcata
     1861 aatttcccgc taaatacggt cgtgatgaaa acatcacggc gtatacaacg gagggattat
     1921 gagactgttt aacgtgattg agacggtgct gaactgcctg tacatggcgc tggagatctg
     1981 ggactggctg gagaagcatt ttcctgtttt taaggcgttc atccggattc tggcctgaaa
     2041 tcagaccgta tgcatctggc tgcatgacca tgcagccggg taaaatttat ctgtcacgga
     2101 cggggcggtg tatcgggtgg tttgttgccg gttttacctg actgccgccc cgtttgtgac
     2161 gaacctgtcc ggagcggtgc gggcaacgga tgttatggta aataggttcg tccggtatgc
     2221 tcaatgaaga taagccagtt tttaactgat tcttttttcg atcgtttgaa acaagaatag
     2281 tatttggcaa tagcggttgt ctttatctag ccaagcacaa ttagctagat ctatgtaacc
     2341 gttattttga gacgatccat atccgatgac cgtcatcgct tttgattctg actttaagta
     2401 aactatatcg cctatattaa atggaatttt tttatcctat aaaaagccac ctcacaggtg
     2461 gcttttattt atgcatgatt ccctttcgct acgcgacgat acatgccaat atcacttatc
     2521 tcacttattg tgaactcggt tagatttttc tttgctgagc tcccaggtct gatttcaaga
     2581 gtatataaca aatcaagaag ttcttttctg ctatatttct gatcgtggaa atatgaatac
     2641 agatcttctt ttgacatttc catcagttct tcaactgatt tatgtgtcat tctccttgtt
     2701 gctaaaataa tctcctcaac gagatcggag cgttttaatt tgcttgggtt ctttggaagt
     2761 aaattaccaa aggattcaat tagctcggca ttagtcattt cacttttatc caagccagct
     2821 ttagctccct caacgccaag ccaagatatc agtttttgga tatctatcat cgacaagtcc
     2881 tcataaactc aatcgtcaag ttcttaaact gtgacgcttg tttgtaagcg ttacttatct
     2941 gtacatcata cactgaaacg cgctctgctg cagctactct tagcccatca ccttccgtta
     3001 tgtagtgctt gaagatgtca cctgcttgcc gaagcctgtt gtattcatat tgctctgttt
     3061 gcttcagttc ttctgcatat tctctggcca tcattcccat tgctccggcg aaaactgtgt
     3121 ccttatatga atcgccgact tgcagtgcct ttcttagcat ttcaatatct tcatttacat
     3181 tatttatctc acctatgacc gtggccacac caatagatga ttgcctgtct agttttaccg
     3241 gtgatacaca ataatctgat gcgtagatta tagagcgcat gacatcagaa acttcggggt
     3301 gtgaatcaat caatatgtag tcataattat ctgcaatagg tgataataca gcgcttatgg
     3361 tttttaaatg ctgtaaaaga atggcattgt tcgatcttat attgtttgta ctaggtagct
     3421 tatcagttga aacggttgat aagcgagggt cggctggaat gacatcgata ccactattaa
     3481 atttaattat gtctatgtca gtcgtttgtt gtgccgcgct atataattgc tgatacttgt
     3541 taaataacgt tgttccttgc ggtgcttgat ttccaaagtt ttcgatcagt ttagggaaaa
     3601 atcttccagt tatacctccg cgttgataat ctgcatctat aactaaaaca cgtttttcat
     3661 gaaaacgact aagtccttcg gcaatgtgat aacaggacgt tgttttacca accccacctt
     3721 tctcactaat aaacccaact gtcacagcca tttttattcc ttacaaatct cttttttttg
     3781 gtagagggaa cagcgtcaac gctttccttg acgttcagta taacgtcagc gtactcttag
     3841 ccatcaaacg aaaaaaccga ctggggagtc ggttttttcg agggttcagt aagttgggga
     3901 acttctgaac cgtggtaaca gggtgtacaa gaccgctgaa accaaattct gttattccag
     3961 tttagcctct ctaaggctga tacttcaaga actctcactc agtaaatctt gtacacccct
     4021 ttactcatgg ctgctgccag tggcgctttg tcgtgtcttt ccgggttgga ctcaagtcga
     4081 tagttaccgg aacaggcgca gcagtcggac tgaacggggg gttcgtgcat acagtccagc
     4141 ttggagcgaa ctgcctaccc ggaactgagt gtcaggcgtg gaatgagata aacgcggcca
     4201 taacagcgga atgacaccgg taaaccgaaa ggcaggaaca ggagagcgca cgagggagcc
     4261 accaggggga aacgcctggt atctttatag tcctgtcggg tttcgccacc actgatttga
     4321 gcgtcagatt tcgtgatgct tgtcaggggg gcggagccta tggaaaaacg gcttcgccgc
     4381 ggccctatcg cttccctgtt aagtatcttc ctggcatctt ccaggaaatc tccgccccgt
     4441 tcgtaagcca tttccgctcg ccgcagtcga acgaccgagc gtagcgagtc agtgagcgag
     4501 gaagcggaat atatcctgta tcacatattc tgctgacgct ccggtgccgc cttttttctc
     4561 ctgccacatg aagcactttc ctgatacccg cactcatgcc aacatagtaa gccagtatac
     4621 actccgctag cgctacgtga ctggttcagg gctgcgcccc gaaacccgct aaaagccact
     4681 gacgcgcctg cggcttgtcc aacaccgtgc cgcccgggaa aaatttcccg cccgtcccgg
     4741 tgttatcagg aggttactct ggcagacaaa cgcaacaag
//
