LOCUS       NZ_CP103776             3751 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Salmonella enterica strain S1905 plasmid pS1905_5, complete
            sequence.
ACCESSION   NZ_CP103776
VERSION     NZ_CP103776.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30507085
            Assembly: GCF_024917195.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3751)
  AUTHORS   Yue,M.
  TITLE     Genome sequence of Salmonella
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3751)
  AUTHORS   Yue,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-AUG-2022) Clinical laboratory, Hangzhou Children's
            Hospital, 195 Wenhui Road, Hangzhou, Zhejiang 310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Illumina HiSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 05:35:37
            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)                     :: 4,942
            CDSs (total)                      :: 4,824
            Genes (coding)                    :: 4,681
            CDSs (with protein)               :: 4,681
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 143
            CDSs (without protein)            :: 143
            Pseudo Genes (ambiguous residues) :: 0 of 143
            Pseudo Genes (frameshifted)       :: 53 of 143
            Pseudo Genes (incomplete)         :: 108 of 143
            Pseudo Genes (internal stop)      :: 28 of 143
            Pseudo Genes (multiple problems)  :: 40 of 143
            Pseudo Genes (short protein)      :: 1 of 143
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103776.1.
            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..3751
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="S1905"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="pS1905_5"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2021"
                     /collected_by="Meina Yue"
     gene            complement(42..1061)
                     /locus_tag="NYS49_RS24655"
                     /old_locus_tag="NYS49_24655"
     CDS             complement(42..1061)
                     /locus_tag="NYS49_RS24655"
                     /old_locus_tag="NYS49_24655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /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_001271364.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(1495..2028)
                     /locus_tag="NYS49_RS24660"
                     /old_locus_tag="NYS49_24660"
     CDS             complement(1495..2028)
                     /locus_tag="NYS49_RS24660"
                     /old_locus_tag="NYS49_24660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168772.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(2031..2957)
                     /locus_tag="NYS49_RS24665"
                     /old_locus_tag="NYS49_24665"
     CDS             complement(2031..2957)
                     /locus_tag="NYS49_RS24665"
                     /old_locus_tag="NYS49_24665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_014342223.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGYDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            3134..3532
                     /locus_tag="NYS49_RS24670"
                     /old_locus_tag="NYS49_24670"
     CDS             3134..3532
                     /locus_tag="NYS49_RS24670"
                     /old_locus_tag="NYS49_24670"
                     /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_001222916.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     Typing          complement(287..1061)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.907"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(2035..2957)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccattaacaa aaaacggggg gtagtgttac ttctttgtta actaacattt aattatttgt
       61 ttcttggtta gccattctcc agaattatcc atccagcgtc gaatagtccg gctgctaaca
      121 ccaaccgcca ctgcaatatc ttccgttgac gctcccaaga tatacatatc aagcgcccta
      181 cgacgtttgt cgtcgttagc agtccaccga acagcggcgc tttttttccc tttgtccgac
      241 tgattttctg acgaattggc cttcccgccc ttgcgaccgc gtgctgcctg aatttctggc
      301 gtgtgcgtat cagccacata ctgtgcgaaa gtttccggcg tgaagttcct gtgcgtgtat
      361 ttcgcaatgc tcttgccaat agcccgacat tcagccagtg aaagcggaac gggaagcgat
      421 gcattgtaca tttcgacacg ctggatcacc gcttcaagcc actgtgagaa cgctggccag
      481 ccctgacgaa tcgccctgta agcccatttg cgcgtcattt cgaacaggtg gcagtttcgc
      541 cccatcccgt aatgtttatc gatgctacga cgctctgagg cgctcaaatc gagataatct
      601 gccagttcat cgagggtata ggcgtcctcg cgccactcca tcacctgcca ttccaggtgg
      661 aacggatttt tgcaaatcag gccgctgtag ttcacatcag cacaaagttt ctcacacagc
      721 gaacgttcaa ccgctgcggc atatttcagc gccttaaccg aggcatcagg cgcggttctc
      781 acggcgatgt tgagtgcgta gagcaggtga gcgtgtccgt tcacaggatt tttaacggtg
      841 atgttcggcg cgggggcgtt ccggtcgctc cagtcaatcg cagccccctc gcggtcaacg
      901 tcaaaaacca gccagaactg cgcatgaggc tggttctgct ggatgtaccg cgcaagaagc
      961 gcacgccctt tgccggagat gcgaaggccg aaagcgagat catccgtgtg ataggggcgg
     1021 tggggtaaat tttcttcgaa gtattgaagc gcggcgctca tgtgttacga ttccttccag
     1081 gttatcgacc gacctcgccc ctgtattctc gtgacaatct tggcggagag acacgaattt
     1141 caggggcgtt tgtttttcag tcgcttacac tacccccaac aacaaaacct gtcgagcctt
     1201 cccgcaaaac cgatccattt accataactc ccgttgtacg ccccccttaa aacgccctca
     1261 gtcgctctct ggcgcaaaaa acgcaaaaag acaaggaaac accaggctaa accagaaaaa
     1321 tgcgtcagaa tcgtttttag cgcgttgcat aactatgcac gaaagcgatg cgcgatctgt
     1381 ttcgagcgtt cagaagggcg aacgggtcaa aacagcaaac tttctcatca gaaaacggtg
     1441 aacgggacgc ggaatttttt cgcgggtcgt gaggcgttgg acaagcgaag cgcgtcagtt
     1501 tttccggctc ttgcccgtga caggtttctc cgccagttta tcttccagtg tcacaacttt
     1561 ctgatacacc gccgctgtgg cgttgtagtt cctgtcgagc attgttttca ttccccatcc
     1621 aagcacacag aacataacca gaaaagccac tgacacccca cccagccatt tccagctata
     1681 ccctttaagg gtgttgtatt cctgcacgat attgctgtga attgtcgcaa tatccctgtt
     1741 cagggcatcc gcgtttgcct tcatgtttgc gactgactct tccagccgct gaaaatcctg
     1801 gctgatgcgc tcacctatca gccctgcaac atccagcttc tgcacctcgt ttctgacttc
     1861 atccctgacc tgttttgcca caccgtcaga aatatcccga tatccgcgaa gtgtttccct
     1921 tgccacagcc agagaatcag caacagcttt ctgttgctcc attgcggtat gttgcagatg
     1981 ctccaccgat aacaggagcg tgagtaattt ttcttctgtg ctggccatgt tcagaatccc
     2041 atagaaaatc cacgtgacgg tgatttaacc cgttcaggtt cagttcggtt ctgtctgctc
     2101 actctgtctc tcatgtcaaa gccatgctcc cgcgcaacat catgttgcag ccttctgacc
     2161 agttcatgtt gcttaaccgg agtgtccagc cattccctga tgtcataccc gaccgttcgc
     2221 gcctgttcaa gatggcggga atagtccggt tcagaccgtt tttgcatgat gtcatgacgc
     2281 tgggcatcat caagccgtcc ggcagcttca aaacccagat gcacttcggg acgtcgttca
     2341 atgccctgtt ctttcagcgt ccggcagtca atgaagcccc tttcaaagcc atgctttctc
     2401 atatgttcgt tgtgcttcac ctcccagcgt tttcgcaatt cccgcaactg ctctttttgc
     2461 tgagtgagag tcaggcttcc ggaatccttt ttcgcacctc cccgctcggg atacctggcg
     2521 ttatagcgcc ggaaatactg ttccggtgta cgttcaatgc catcattcac acgctggctc
     2581 atcatgatat gcgcatgagg ctgttcgccg ccgtcaatgc tcgctttcgg attgtgaatg
     2641 gcaaaactcc aggcgtgccg ttcgccagct tcctgacgta caaaatcctg caccagttca
     2701 aggcgctgtt ccgctgtcag ttcacggggt aatgcaattt caagttcccg ataggtcgaa
     2761 ccgttcgcac gttcaaactg gtcagcagcc tgccagaaat gtgagggatt atctcgcgcc
     2821 cattccggca tgtttccgtg tgcggaatat tccaaatcct gacggtcgcg gtatttctct
     2881 ttgcgctcga tgtaatcggc gtggtttgca gcctgcccct tgccaccaaa tttaacgctg
     2941 aggtgatagg ttgccacggt ttcagccctc cgcaggagcg cactgtttct cgacgaagga
     3001 gagaaacata taagtgcgct tccttctaat tttacgaatt agcacggaag ataccccctg
     3061 cacccgccga ccgcaagcga tatactgcac gaccacaaca caccgcaaaa aaacaccagg
     3121 gagcaccacg aacatgcgca tcagcaacat cgaatggctg aagaaacgga tcggattcat
     3181 caggaagctc ggagaacaga ccgcacgaca gagacagatt attgacctgc tcgacaacga
     3241 agcaggactc acagaacagg aacgcaaact cctccacgta ctggcaacag cggaaaaaaa
     3301 cgacttacag gcacaggaga gcgaacgaaa acaggcggtc caaaaacgaa tcgagggaaa
     3361 aaaacaacga cgagaacgca atcaccgact ctttctcgcg gctgggctac tgatcgaagc
     3421 aggactggta gacacaaaaa caggcgagct atgctataaa aaagacagga tattacaggc
     3481 acttaaggaa attaagtacg atctggagac atccccaaac ccagacgcgt aagtgcctcc
     3541 atccgtgttc cggttccctg gtgcttcctc gctcattcgc tcgctacgct cggtcatgag
     3601 actgcggcga gcacgaccac ctcaatcatg cggtaggccg caccattgct gggctgagag
     3661 gagaaaaccg ccggaaagcc cgctgctcaa aaagacgccg aaaggcgctg ttatctgata
     3721 taggcttgtt catgtccgcg aatttaacca c
//
