LOCUS       NZ_AP026957             3793 bp    DNA     circular CON 27-NOV-2023
DEFINITION  Salmonella enterica strain SE20-72C-2 plasmid pSE20-C72-2-9,
            complete sequence.
ACCESSION   NZ_AP026957
VERSION     NZ_AP026957.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00515066
            Sequence Read Archive: DRR396386, DRR396387
            Assembly: GCF_025999715.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1
  AUTHORS   Nakayama,T., Yamaguchi,T., Phuc,N.D., Chinh,D.V., Jinnai,M.,
            Kumeda,Y. and Hase,A.
  TITLE     Complete genome sequence of Salmonella enterica SE20-C72-2
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3793)
  AUTHORS   Nakayama,T. and Yamaguchi,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-OCT-2022) Contact:Tatsuya Nakayama Hiroshima
            University, Graduate School of Integrated Sciences for Life; 1-4-4
            Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8528, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Coverage                   :: 187x
            Sequencing Technology             :: Illumina iseq; Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/27/2023 03:37:18
            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)                     :: 5,087
            CDSs (total)                      :: 4,969
            Genes (coding)                    :: 4,785
            CDSs (with protein)               :: 4,785
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 184
            CDSs (without protein)            :: 184
            Pseudo Genes (ambiguous residues) :: 0 of 184
            Pseudo Genes (frameshifted)       :: 66 of 184
            Pseudo Genes (incomplete)         :: 133 of 184
            Pseudo Genes (internal stop)      :: 28 of 184
            Pseudo Genes (multiple problems)  :: 40 of 184
            Pseudo Genes (short protein)      :: 1 of 184
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP026957.1.
            Annotated by DFAST https://dfast.ddbj.nig.ac.jp/
            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..3793
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="SE20-72C-2"
                     /isolation_source="Gut content of Anabas testudineus"
                     /host="Anabas testudineus"
                     /db_xref="taxon:28901"
                     /plasmid="pSE20-C72-2-9"
                     /geo_loc_name="Viet Nam:Ho Chi Minh City"
                     /collection_date="2020-03-18"
     gene            535..1650
                     /locus_tag="OO990_RS25375"
                     /old_locus_tag="SE2072C2_48830"
     CDS             535..1650
                     /locus_tag="OO990_RS25375"
                     /old_locus_tag="SE2072C2_48830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_000588564.1"
                     /translation="MIKDIHLKNFKCFESITLKQLKTLNVISGKNNFGKTSILDAIFSF
                     YDVKNPAALLKVKSFRNEASLLNKENSFWDSYFYNMDTSKEMSITIRDERSEVTQKYST
                     IDNTQSESSVSLNVESILSNTPPLRQTLGSQEKGNVLMIKVSETQNGKRTHPEELITIK
                     ITQKTQEINGEIKQTKKGKLYEFKTAAIITTSRNINKEATIKNVSKLLTQKRKDEIIGN
                     LKRIDNRINDIAIIATDQNKEIFLDIGLSELNEISMLGEGVSRALSFISSILVQKDSII
                     LIDEIENGIHYSVIKDMINALIEAAKTNNNQIFTTTHSHDVICAINELDEKRKDISYIR
                     LGRDKESQKPTAMQFNMDDFSFSVENGWEVR"
                     /name="ATP-binding protein"
     gene            1651..2289
                     /locus_tag="OO990_RS25380"
                     /old_locus_tag="SE2072C2_48840"
     CDS             1651..2289
                     /locus_tag="OO990_RS25380"
                     /old_locus_tag="SE2072C2_48840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012579086.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_000804504.1"
                     /translation="MKPRKINDYKKVIFVEGDDDFHFLCNLLEIEGINDVYVEKINGKT
                     KLKQTLRAFKSIESFNEKESIFLIIDADESFSDTERSIISTLNELNISSPSSHNEIAIN
                     GSTKISFFIMPGKNKNGAIEDLIIAHACKKEVFRYIDDLFNKIKEQESIITSLDPDYAY
                     PNNEKKAKVQVYLSCNKESDSRIGISMKNKTIDTDDDCFSEIKEFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(2560..2883)
                     /gene="mobA"
                     /locus_tag="OO990_RS25385"
     CDS             complement(2560..2883)
                     /gene="mobA"
                     /locus_tag="OO990_RS25385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            3168..3362
                     /locus_tag="OO990_RS25390"
                     /old_locus_tag="SE2072C2_48850"
     CDS             3168..3362
                     /locus_tag="OO990_RS25390"
                     /old_locus_tag="SE2072C2_48850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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_001041645.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2893..3132)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          2..165
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.576"
                     /coverage="95.0"
                     /evalue="1.2e-73"
     Typing          3392..3793
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.12"
                     /coverage="97.0"
                     /evalue="2.27e-166"
     Typing          complement(2564..2883)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.01e-62"
ORIGIN
        1 ctcacgctgt aggtatctcg gttcggtgta ggtcgttcgc tccaagctgg gctgtgtgca
       61 cgaacccccc gttcagcccg accgctgcgc cttatccggt aactatcgtc ttgagtccaa
      121 cccggtaaga cacgacaaag cgccactggc agcagccatt ggtaaaagtc gatgtgcgag
      181 aggttcaaga gagtacttga agtgatggcc tgactacagc tacactgaaa ggacagtttt
      241 ggtgactcgt ctcgcacaag acagttacct ggttaagcag ttccccaact gacttaacct
      301 tcgatcaaac cacctcccca ggtggttttt tcgttttcag tttaggagat tacgaccaga
      361 acacaataat cacaagaaga aactccgaca aactggttaa aatcaatcca aacaggacta
      421 taaagtaata ttattttgat tatacttcta gaaaagaaac agtggcatag tgatgcataa
      481 ataaacacat tattactatg taaacgtaaa cagaaatgga gagcaagttt aaacatgata
      541 aaagatatcc acttaaaaaa ttttaagtgt tttgagagca taactctcaa acaactaaaa
      601 acacttaatg taatatccgg aaaaaacaac tttgggaaaa catcgatatt agacgcgata
      661 ttttcatttt atgacgtaaa aaacccagca gctctgttaa aagtaaaaag ctttagaaat
      721 gaagcatctc ttttaaataa agagaactca ttttgggata gctattttta taacatggac
      781 acatccaaag aaatgtccat aacaataaga gatgaaaggt cagaagtaac acaaaaatac
      841 tcaacgatag ataacacaca aagtgaatca agcgtgtccc tcaatgttga gtcaatatta
      901 tcaaacaccc ctccattgcg acaaaccctc ggctctcagg aaaaggggaa tgttttaatg
      961 attaaggtta gtgaaacaca gaacggaaaa agaacccacc cagaagaatt gattactata
     1021 aaaataacac aaaaaacaca agaaataaac ggagaaataa aacaaactaa aaaaggtaaa
     1081 ctatatgaat tcaaaaccgc agcgataata accacatcaa gaaacataaa caaagaagca
     1141 acgataaaaa acgtatcaaa actactaaca caaaaaagaa aagatgaaat aataggcaac
     1201 ctaaaaagaa tagataatag aattaacgat attgcaataa tagcaacaga tcaaaacaaa
     1261 gagatttttt tagatatagg actaagtgaa ttaaatgaaa tatcaatgct tggtgaagga
     1321 gtaagcagag cgctgtcttt cattagctca atcttagttc aaaaagactc aattattctc
     1381 attgatgaga tagaaaatgg aattcattac tcagtaatca aagatatgat caacgctttg
     1441 atagaagcag caaaaaccaa taataatcaa atatttacaa caacacacag ccatgatgta
     1501 atatgtgcga taaacgaatt agatgaaaaa agaaaagata tatcttacat aagactggga
     1561 agagacaagg aatctcaaaa acctacagca atgcaattta acatggatga tttttctttt
     1621 tcagttgaaa atggctggga ggtgagataa atgaaaccga gaaaaataaa tgattataaa
     1681 aaagtcattt tcgttgaggg tgatgatgat tttcacttcc tttgcaatct acttgaaata
     1741 gaaggaatta atgatgttta tgttgaaaaa ataaatggaa agacaaaact aaaacaaacc
     1801 cttagagcat ttaaaagcat agagtctttt aatgaaaaag aaagtatatt cttaatcatc
     1861 gatgccgacg aatcgttttc tgacacggaa agatcgataa tttcaacatt aaatgagctt
     1921 aacatttcat caccaagctc gcataatgaa atagccatta acggaagcac aaaaatatct
     1981 ttctttatca tgccaggaaa aaacaagaat ggcgcaatag aagatctaat cattgctcac
     2041 gcgtgtaaga aagaggtgtt tagatatata gacgatctat tcaataaaat aaaagaacaa
     2101 gaatctatta ttacatcctt agatcctgat tacgcttacc caaataatga aaagaaagca
     2161 aaagttcaag tttaccttag ttgtaataag gaatcagatt ctagaatagg catatcaatg
     2221 aagaacaaaa ccattgatac tgacgatgac tgcttcagtg agataaaaga atttatatca
     2281 aaaatatgaa acaactccac ctacaaaatc atagcgcaat gactaaagac aattataaaa
     2341 tttaacataa tgctgtaatt gtacgcacca ctgaaacgcg ctgaacgcga ttctgacgca
     2401 gacaccgcaa aaagagatgt tttaccccgg gaaaacagga aggatgcgtc aggatcgttt
     2461 tcagctcgct gcatagctat gcatgaaagc gaatggtgat cactttggga gcttacggtg
     2521 ttcataccgt ctgttttcga cagttttctc tccgggaagc taatctgcca taagcctgga
     2581 taacagggca cggtgatact ccgtaatagc gatcagcacc tccgcatact ccctgtcccc
     2641 gacacgcttg ccgtcgataa agagtttttt ctgtaacgcc cccagtctca taacttcttt
     2701 cagtacccga tcatcagtca gtgagttaac tttcttaccg agagctgccg cccgtaaaaa
     2761 accggaaacg gtcttgccgc attcagcagc cctttttctg atttcctggt cttcttctgc
     2821 cgtcagacga acagggcgac tgatagcccg cctgcgcgta ttacttccac ttcgttttgt
     2881 cataaaacat ggctccgtat ctgacatggg tgtcggggca aagccctgac cagggtaatt
     2941 gtaatagcgt gcatgtatgc gcggtataac aattacacat cctgtcctgt cagcaagttc
     3001 gaattaccga caaaggcacg gcagtttttt ggcagtgaca gtattgtcag gcagaaatac
     3061 ccgtcaaagc gtcagacggc agaataccgg cggtaaaaca gtcgaaaagt ggtacgcgat
     3121 ataatcacac aacgcagatg atcagaaaga acggagaaaa cagaaagatg aacaagcagc
     3181 agcaaaccgt actcaacatg gcaggattca taaaaagcca gagcctgacg ctgctcgaaa
     3241 agctggacgc actcgatgct gacgaacagg ctaccatgtg tgagaagctg cacgaactcg
     3301 cagaagaact ccagaacagc atccagacac gctttgaagt agaaaatagc acagagagat
     3361 aacgctcagg acaggatgcc gaacggcaca acagagcgta aggagaaaat gtcacataag
     3421 gcgctcttcc gcttcctcgc tcactgactc gctacgctcg gacgttcgac tgcggcgagc
     3481 ggtgtcagct cactcaaaag cagtaatacg gttatccaca gaatcagggg ataaagccgg
     3541 aaagaacatg tgagcaaaaa gcaaagcacc ggaggaagcc agcgccgcag gcgtttttcc
     3601 ataggctccg cccccctgac gagcatcaca aaaatcgacg ctcaagccag aggtggcgaa
     3661 acccgacagg actataaaga taccaggtgt ttccccctgg aagctccctc gtgcgctctc
     3721 ctgttccgac cctgccgctt accggatacc tgtccgcctt tctcccttcg ggaagcgtgg
     3781 cgctttctca tag
//
