LOCUS       NZ_AP026956             4806 bp    DNA     circular CON 27-NOV-2023
DEFINITION  Salmonella enterica strain SE20-72C-2 plasmid pSE20-C72-2-8,
            complete sequence.
ACCESSION   NZ_AP026956
VERSION     NZ_AP026956.1
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  JOURNAL   Unpublished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 4806)
  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
            AP026956.1.
            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..4806
                     /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-C72-2-8"
                     /geo_loc_name="Viet Nam:Ho Chi Minh City"
                     /collection_date="2020-03-18"
     gene            332..727
                     /locus_tag="OO990_RS25350"
                     /old_locus_tag="SE2072C2_48780"
     CDS             332..727
                     /locus_tag="OO990_RS25350"
                     /old_locus_tag="SE2072C2_48780"
                     /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="hypothetical protein"
                     /protein_id="WP_264879152.1"
                     /translation="MGKGKLSVNRPMSNGKGFLTFIYRIDNNLLLDEFINRFEKKITKK
                     RYMDFLLFILTDDTENIEKIEKMFTRICGVDIEDNVLKAIECLKKDSYTPERFDDLIIY
                     FRTKKEKREIESIMFDSNNNNKKRGRL"
                     /name="hypothetical protein"
     gene            724..1026
                     /locus_tag="OO990_RS25355"
                     /old_locus_tag="SE2072C2_48790"
     CDS             724..1026
                     /locus_tag="OO990_RS25355"
                     /old_locus_tag="SE2072C2_48790"
                     /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="hypothetical protein"
                     /protein_id="WP_182930714.1"
                     /translation="MRRTPEQRKAYLEAQLNSVKAKINKQKRKDYTVKKRETDHLKYTF
                     AGDILKVMGCDVREVDLALVLGAVYFATSENANPKNVELYKRKGLEILKENKKEI"
                     /name="hypothetical protein"
     gene            1915..3360
                     /locus_tag="OO990_RS25360"
                     /old_locus_tag="SE2072C2_48800"
     CDS             1915..3360
                     /locus_tag="OO990_RS25360"
                     /old_locus_tag="SE2072C2_48800"
                     /inference="COORDINATES: protein motif:HMM:NF013603.3"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_264879153.1"
                     /translation="MFTGTSLINKSRSVNRPDNLKEFASVNGERITERKKETFNIALSM
                     KDKGEDLQDETLTKRAERSLKCSSFRYIATVNGQAQTLYTHRCKGRHCQECQRIKAYIW
                     QKKTESIFPKLEENYLNAKYLFATFTIKNPKITDLRVVLSVMNKAANRLFKMKKYKDFI
                     LGGIRSTEITRGKSGADECHPHFHFLLMVKGNYGKKYYVNQEDWGKDWGDCLAYECDKA
                     GYPYNPIDYPRGFPIVDVVRAMDKEKKIEITNKNIKNSGEAIINYVLKYSVKGSDILDH
                     KKGKNDNWFFEFDKQIKGCRMITPVGVFKKYLSEIKKDPFDYEIEKAKIEERLGEGYQV
                     NKAIFKKGDYKLENKKDSEGYLLEALEAKAYNFQQLYLTIYSDYIKFYNDTNREISKLE
                     DKLFNEDNMLIESKIGRLLLIQEDRKKRINNTIESLRRVGYLKEEKGLYYDEWGSLWAT
                     FEIEKPTIEIVEINDFADMFEVW"
                     /name="protein rep"
     gene            3360..3503
                     /locus_tag="OO990_RS25365"
                     /old_locus_tag="SE2072C2_48810"
     CDS             3360..3503
                     /locus_tag="OO990_RS25365"
                     /old_locus_tag="SE2072C2_48810"
                     /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="hypothetical protein"
                     /protein_id="WP_159379050.1"
                     /translation="MKKKQKPKKRNRNKKSKFFKMLMASVREAVEISKGNIEPARITIL
                     KR"
                     /name="hypothetical protein"
     gene            complement(3523..4800)
                     /gene="mobQ"
                     /locus_tag="OO990_RS25370"
                     /old_locus_tag="SE2072C2_48820"
     CDS             complement(3523..4800)
                     /gene="mobQ"
                     /locus_tag="OO990_RS25370"
                     /old_locus_tag="SE2072C2_48820"
                     /inference="COORDINATES: protein motif:HMM:NF041496.1"
                     /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_264879151.1"
                     /translation="MAIYYFDVSSVSRSSGKKSASSVAASAYQNRARYTDERTGTTYDY
                     TKKGGLYYSGILAPENAPESLTASPLTLWNTIEAIEKRKDARLAKDFKISLPIELTPEQ
                     NKALILDFAKQAFVSKGMIVDLAIHDIDTQPHSHIKTTTRELTPEGFGGKVREWDKMDH
                     IMEWRKLWAKVANEHLLKAGHDITISHLTLKEQMKEALEEMDKTTDLEEKIKLASKAIE
                     LNRPAMKTISKKDWGDPKFQEIRKQEQEAKKQILKKAKNFRIKNTRELKEIQTELNKKF
                     RPSKIYKSVSEAIRNLNNKITNSKLNNILNDKLDKLTKAIISIPENRKIKRERKIRDKE
                     LEEEKRIFRETHKMDEFGNIYKKGDSKKWNKKNNELIKQQTASNKAKAEEERERKKLED
                     EAERLAEKNNISHNDFKQKKKRGLGI"
                     /name="mobQ"
ORIGIN
        1 aaacctccac ttttctaatt ttttttgggg ttggtttttg cttttctttt ttcccgttta
       61 cgggaaaaaa ccctgtcgtt gcgttagcaa tgcggagaag ggcttcaagt aatttttctt
      121 tttcgtaaac tcaaaataaa aaactttcag aacggcaaaa atgcttttcc ttattttaga
      181 tataacataa atttgactaa agtaaattgt ggaggtatat ggttattaat taatactatt
      241 taaacctttt tttgatttaa ctttatatat acacgaggaa ggcttcgaag aagaagaata
      301 taaaagactc gttgggttgt gttttgaaag tatgggaaaa ggaaaactaa gcgtaaatag
      361 accaatgtca aacggcaaag gatttttaac ttttatatat agaattgata ataatttatt
      421 gttagacgag tttataaata gatttgagaa gaaaataact aaaaaacgat atatggattt
      481 tttgctgttt attttgacag acgacaccga aaacatagaa aaaatagaaa aaatgtttac
      541 tcgaatttgt ggggtagata ttgaggataa tgttttaaag gctattgaat gtttaaaaaa
      601 ggacagttac acacctgaga gatttgacga tttaattatt tattttagga ctaaaaaaga
      661 aaaaagagaa attgagagca ttatgtttga ttcaaataat aataataaaa agaggggtag
      721 attatgagaa gaacaccaga acagaggaaa gcatatttgg aagctcagct taatagtgta
      781 aaagcaaaga taaacaagca gaaaagaaaa gattacactg ttaagaaaag agaaacggat
      841 catctaaaat atacttttgc aggtgatatt ttaaaagtta tggggtgcga cgttcgggaa
      901 gttgatcttg ctttggtgct tggtgctgtt tactttgcta caagtgaaaa tgcaaaccct
      961 aaaaatgtag agttatataa aagaaagggg ttggaaattt taaaagaaaa taaaaaagaa
     1021 atttgacaaa aacataatta gaatatattt aatatatagt cgtttatata tttagtatcc
     1081 tttcctgtgg agagttaaga aattatttat taatatatat acggctaatt tgccccattt
     1141 atggggatat tggagaggct aacttaggtt agcctttcgt cctttctgat accgttcacc
     1201 agtgccgaac cgtcaaggag aaaatcgggg gttccctttt aagggttccg attttgtact
     1261 tgtacggctc cctggtcaat acaacacttg gcaaaggtgg aaggtgaaca aagagagcct
     1321 tccacctgtt aagccgtctt taaatgttgt tcattcgtcc aggattgcat aactaagtta
     1381 tatgcctata ccattgccac ggagtggttg cctttggttt gaaggttgcc gaaggcgacc
     1441 cctccccttg tttagtaaga aacaaatgga ggcaaaactt ggcttctaaa actcccctac
     1501 aagccccgtc attactggct ttaaccccat ttttttagca gttttcaagg ggggtaaata
     1561 gcactttttg ctaaagaatt ttagaacaaa aaataatcaa ttccccagat atgggacagc
     1621 accttcaaga tcgccagaaa acaccccaaa aaatgggacg acacctttta aaactatccg
     1681 acaaacggaa gatttgggac ggaacattta gaacaccggt tttttggtgt gaaaaatggg
     1741 acgggtctaa ccgtaacggc ataaaaacac ggaaaaaatg ggacggtatc gacttttggc
     1801 ggtgggggaa gttttggagg tagatctgat aagtgcttga ctgatttgac aaaaagaaaa
     1861 aaccccgtaa agttggaatt gtctagattc atacaatacg gggtatttct taatatgttt
     1921 acagggacaa gtctaattaa taaaagtagg tctgtcaata gaccggataa tctaaaagag
     1981 tttgccagtg taaacggtga acgaataaca gaaagaaaaa aagagacctt taatattgct
     2041 ttgtctatga aagacaaagg cgaagatcta caagacgaga cattaactaa aagggctgaa
     2101 aggtctttaa agtgttcttc ttttcgttat atcgccacag ttaacggaca ggctcaaacc
     2161 ttatatactc accgttgcaa aggtcgccat tgccaggaat gccaaagaat taaggcttat
     2221 atctggcaga aaaaaacaga gtctattttt ccaaaactgg aagaaaatta tttaaatgct
     2281 aaatatttat ttgcgacatt tacgattaaa aacccaaaaa ttacagatct aagggttgtt
     2341 ttatcggtaa tgaataaagc agcaaataga ctttttaaaa tgaaaaaata taaagatttt
     2401 attcttggag gtatccgttc gacggagatc acaaggggaa aatctggggc tgacgaatgc
     2461 catccccact ttcatttttt gcttatggta aaaggcaatt acggtaaaaa atactatgta
     2521 aatcaggaag attgggggaa agattggggg gattgcctgg cttatgaatg tgataaggca
     2581 gggtatccgt ataacccaat cgactatcct cgcgggttcc caatcgtgga cgtcgttagg
     2641 gctatggata aagaaaagaa aattgaaatc actaataaga atattaaaaa ttcgggtgaa
     2701 gcgattataa attatgttct aaaatattcc gtcaagggca gtgatatttt agaccataaa
     2761 aaaggaaaaa atgataattg gttttttgaa tttgataagc agattaaagg ctgtcgaatg
     2821 ataacaccag ttggagtttt taaaaaatat ctaagcgaaa ttaaaaaaga tccgtttgat
     2881 tatgagattg aaaaagcaaa aatagaagaa agattggggg aaggttatca ggttaataaa
     2941 gctatattta aaaaaggcga ttataagctt gaaaataaaa aagatagtga gggttattta
     3001 ttggaggcat tggaagcaaa agcctataat ttccagcaat tatatttaac catatatagt
     3061 gattatatta agttctataa tgacactaac agggaaatat ctaaattaga agataagtta
     3121 tttaatgaag ataatatgtt gatcgagtct aaaattggca gattattatt aattcaggaa
     3181 gatagaaaaa aacgaattaa caatacaatt gaaagtctga gaagggtagg ttaccttaaa
     3241 gaagaaaaag ggctttacta tgacgaatgg ggatcgcttt gggcaacatt tgaaatagaa
     3301 aaacctacta ttgagatagt ggagattaac gattttgctg atatgtttga ggtgtggtaa
     3361 tgaaaaagaa acagaagcca aaaaaaagaa atcgtaataa aaagagtaaa ttctttaaaa
     3421 tgctaatggc ttcggttcgt gaagccgttg aaatttcaaa aggaaatatt gagccagcaa
     3481 ggatcacaat tttaaaaaga tagtatattg tagtatatag ccctatatac ctaaccctct
     3541 ctttttcttt tgcttaaagt cattatgtga aatattattt ttttcagcca gcctttcagc
     3601 ctcgtcctct aattttttcc tttctctttc ttcttcggct tttgctttgt tactggctgt
     3661 ttgctgttta attaattcat tatttttctt attccatttt ttggaatctc cttttttata
     3721 aatatttccg aactcatcca tcttgtgagt ttctctaaat attctttttt cttcctctaa
     3781 ttctttatct cttatttttc tctccctctt tatttttcta ttttctggta ttgatataat
     3841 ggcttttgtt agtttatcta atttatcatt tagtatattg tttaattttg agttggtaat
     3901 tttattattt aaatttctaa tagcctcgga aactgattta tatattttag acggtctaaa
     3961 ttttttattt agttccgtct gtatttcttt taattccctt gtgtttttaa ttcggaagtt
     4021 tttagccttt tttaatattt gtttttttgc ctcctgttcc tgttttctta tttcctgaaa
     4081 tttgggatcg ccccagtctt ttttgctgat tgttttcatt gctggtctat ttaattcgat
     4141 agcctttgaa gcaagtttta ttttttcctc caggtctgtt gttttgtcca tttcctccag
     4201 tgcttctttc atttgttctt ttaatgttaa atggctaatg gttatatcat gcccagcctt
     4261 taataaatgt tcgttcgcca cttttgccca taatttcctc cattccataa tatgatccat
     4321 tttatcccat tccctaactt ttccaccgaa cccctccggt gttaattctc tggtagttgt
     4381 ttttatatgg ctatgtggtt gggtgtctat atcgtggata gccagatcta caatcatacc
     4441 ttttgatacg aaagcctgtt ttgcaaagtc taagatcaag gctttgttct gttctggggt
     4501 tagctctatg ggtagggaga ttttaaagtc tttggcaagc ctggcatcct tcctcttctc
     4561 aatagcctct atggtgttcc atagggtcaa cggtgaggct gtgaggctct caggggcatt
     4621 ctccggggct aaaatgcctg agtagtataa cccccctttt ttggtgtagt cgtaggttgt
     4681 gccggttcgt tcgtctgtat atctggctct gttctggtat gcagaagcag caacagacga
     4741 agccgatttt ttgcctgagc ttctgctcac actggaaaca tcaaaataat atatagccat
     4801 attgta
//
