LOCUS       NZ_CP120839             4852 bp    DNA     circular CON 25-MAY-2024
DEFINITION  Salmonella enterica subsp. enterica strain 21A plasmid unnamed2,
            complete sequence.
ACCESSION   NZ_CP120839
VERSION     NZ_CP120839.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33819937
            Assembly: GCF_029580835.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica
  ORGANISM  Salmonella enterica subsp. enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4852)
  AUTHORS   Xu,B.J.
  TITLE     Characterization of salmonella enterica isolates from infectious
            diarrhea by whole-genome sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4852)
  AUTHORS   Xu,B.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-MAR-2023) Department of Medical Laboratory Science,
            Fenyang College of Shanxi Medical University, 5 College Road,
            Fenyang, Shanxi 032200, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SOAPnuke v. 1.5.6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 267.0x
            Sequencing Technology             :: DNBSEQ
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029580835.1-RS_2024_05_25
            Annotation Date                   :: 05/25/2024 05:37:56
            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)                     :: 4,639
            CDSs (total)                      :: 4,518
            Genes (coding)                    :: 4,335
            CDSs (with protein)               :: 4,335
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 183
            CDSs (without protein)            :: 183
            Pseudo Genes (ambiguous residues) :: 0 of 183
            Pseudo Genes (frameshifted)       :: 82 of 183
            Pseudo Genes (incomplete)         :: 114 of 183
            Pseudo Genes (internal stop)      :: 39 of 183
            Pseudo Genes (multiple problems)  :: 45 of 183
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120839.1.
            Bacteria and source DNA available from Benjin Xu.
            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..4852
                     /organism="Salmonella enterica subsp. enterica"
                     /mol_type="genomic DNA"
                     /strain="21A"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:59201"
                     /plasmid="unnamed2"
                     /geo_loc_name="China: Fenyang, Shanxi"
                     /collection_date="2021-05-30"
     ARG             4..836
                     /name="APH(3'')-Ib"
                     /gene="APH(3'')-Ib"
                     /gene_name="APH(3'')"
                     /tool="rgi"
                     /drug_class="aminoglycoside antibiotic"
                     /identity="99.25"
                     /coverage="103.75"
     ARG             34..833
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            836..1672
                     /locus_tag="P4B21_RS23155"
                     /old_locus_tag="P4B21_23155"
     CDS             836..1672
                     /locus_tag="P4B21_RS23155"
                     /old_locus_tag="P4B21_23155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="WP_000480972.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IKDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            1726..1962
                     /locus_tag="P4B21_RS23160"
                     /old_locus_tag="P4B21_23160"
     CDS             1726..1962
                     /locus_tag="P4B21_RS23160"
                     /old_locus_tag="P4B21_23160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000844627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_042005022.1"
                     /translation="MAGQSLSVGFRPFPQTTPTRATAHERTPQQERQKAAREAERGREA
                     WTLGQGMKKPVAGCYGRLTRWKGGGDVVYMALL"
                     /name="hypothetical protein"
     gene            complement(1994..2620)
                     /gene="tetR(A)"
                     /locus_tag="P4B21_RS23165"
                     /old_locus_tag="P4B21_23165"
     CDS             complement(1994..2620)
                     /gene="tetR(A)"
                     /locus_tag="P4B21_RS23165"
                     /old_locus_tag="P4B21_23165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000164043.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="tetracycline resistance transcriptional repressor
                     TetR(A)"
                     /protein_id="WP_031606906.1"
                     /translation="MTKLQPNTVIRAALDLLNEVGVDGLTTRKLAERLGVQQPALYWHF
                     RNKRALLDALAEAMLAENHTHSVPRADDDWRSFLIGNARSFRQALLAYRDGARIHAGTR
                     PGAPQMETADAQLRFLCEAGFSAGDAVNALMTISYFTVGAVLEEQAGGTVEQAPLSPLL
                     RAAIDAFDEAGPDAAFEQGLAVIVDGLAKRRLVVRNVEGPRKGDD"
                     /name="tetR(A)"
     gene            2726..3925
                     /gene="tet(A)"
                     /locus_tag="P4B21_RS23170"
                     /old_locus_tag="P4B21_23170"
     ARG             2727..3922
                     /name="tet(A)"
                     /gene="tet(A)"
                     /gene_name="tetracycline efflux MFS transporter Tet(A)"
                     /tool="amrfinderplus"
                     /drug_class="TETRACYCLINE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(3856..4323)
                     /locus_tag="P4B21_RS23175"
                     /old_locus_tag="P4B21_23175"
     CDS             complement(3856..4323)
                     /locus_tag="P4B21_RS23175"
                     /old_locus_tag="P4B21_23175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008166363.1"
                     /GO_function="GO:0008080 - N-acetyltransferase activity
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNAT family N-acetyltransferase"
                     /protein_id="WP_223155915.1"
                     /translation="MIKAQIRRLGAADVQDFREIRLSALKKAPEMFGSVYEHEEKKPME
                     AFAERLRDAVAFGAYIDGEIIGLSVFKQEDGPKDAHKAHLSGVFVEPEQRGRGVAGMLL
                     RAVIDYGREHVEQIMLTVAEGNEAAINLYQRSARCPAPLQSPRRSAGRQSK"
                     /name="GNAT family N-acetyltransferase"
     gene            complement(<4397..>4468)
                     /locus_tag="P4B21_RS23180"
                     /old_locus_tag="P4B21_23180"
                     /pseudo=""
     CDS             complement(<4397..>4468)
                     /locus_tag="P4B21_RS23180"
                     /old_locus_tag="P4B21_23180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221012.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="TetR family transcriptional regulator"
                     /name="TetR family transcriptional regulator"
     gene            complement(4488..>4625)
                     /gene="trfA"
                     /locus_tag="P4B21_RS23185"
                     /old_locus_tag="P4B21_23185"
                     /pseudo=""
     CDS             complement(4488..>4625)
                     /gene="trfA"
                     /locus_tag="P4B21_RS23185"
                     /old_locus_tag="P4B21_23185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011114072.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid replication initiator TrfA"
                     /name="trfA"
     ARG             837..1669
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
ORIGIN
        1 cgcgcttcat cagaaaactg aaggaacctc cattgaatcg aactaatatt ttttttggtg
       61 aatcgcattc tgactggttg cctgtcagag gcggagaatc tggtgatttt gtttttcgac
      121 gtggtgacgg gcatgccttc gcgaaaatcg cacctgcttc ccgccgcggt gagctcgctg
      181 gagagcgtga ccgcctcatt tggctcaaag gtcgaggtgt ggcttgcccc gaggtcatca
      241 actggcagga ggaacaggag ggtgcatgct tggtgataac ggcaattccg ggagtaccgg
      301 cggctgatct gtctggagcg gatttgctca aagcgtggcc gtcaatgggg cagcaacttg
      361 gcgctgttca cagcctatcg gttgatcaat gtccgtttga gcgcaggctg tcgcgaatgt
      421 tcggacgcgc cgttgatgtg gtgtcccgca atgccgtcaa tcccgacttc ttaccggacg
      481 aggacaagag tacgccgcag ctcgatcttt tggctcgtgt cgaacgagag ctaccggtgc
      541 ggctcgacca agagcgcacc gatatggttg tttgccatgg tgatccctgc atgccgaact
      601 tcatggtgga ccctaaaact cttcaatgca cgggtctgat cgaccttggg cggctcggaa
      661 cagcagatcg ctatgccgat ttggcactca tgattgctaa cgccgaagag aactgggcag
      721 cgccagatga agcagagcgc gccttcgctg tcctattcaa tgtattgggg atcgaagccc
      781 ccgaccgcga acgccttgcc ttctatctgc gattggaccc tctgacttgg ggttgatgtt
      841 catgccgcct gtttttcctg ctcattggca cgtttcgcaa cctgttctca ttgcggacac
      901 cttttccagc ctcgtttgga aagtttcatt gccagacggg actcctgcaa tcgtcaaggg
      961 attgaaacct ataaaagaca ttgctgatga actgcgcggg gccgactatc tggtatggcg
     1021 caatgggagg ggagcagtcc ggttgctcgg tcgtgagaac aatctgatgt tgctcgaata
     1081 tgccggggag cgaatgctct ctcacatcgt tgccgagcac ggcgactacc aggcgaccga
     1141 aattgcagcg gaactaatgg cgaagctgta tgccgcatct gaggaacccc tgccttctgc
     1201 ccttctcccg atccgggatc gctttgcagc tttgtttcag cgggcgcgcg atgatcaaaa
     1261 cgcaggttgt caaactgact acgtccacgc ggcgattata gccgatcaaa tgatgagcaa
     1321 tgcctcggaa ctgcgtgggc tacatggcga tctgcatcat gaaaacatca tgttctccag
     1381 tcgcggctgg ctggtgatag atcccgtcgg tctggtcggt gaagtgggct ttggcgccgc
     1441 caatatgttc tacgatccgg ctgacagaga cgacctttgt ctcgatccta gacgcattgc
     1501 acagatggcg gacgcattct ctcgtgcgct ggacgtcgat ccgcgtcgcc tgctcgacca
     1561 ggcgtacgct tatgggtgcc tttccgcagc ttggaacgcg gatggagaag aggagcaacg
     1621 cgatctagct atcgcggccg cgatcaagca ggtgcgacag acgtcatact agatatcaag
     1681 cgacttctcc tatcccctgg gaacacatca atctcaccgg agaatatcgc tggccaaagc
     1741 cttagcgtag gattccgccc cttcccgcaa acgaccccga cccgcgccac ggcccacgag
     1801 cggacgccgc agcaggagcg ccagaaggcc gccagagagg ccgagcgcgg ccgtgaggct
     1861 tggacgctag ggcagggcat gaaaaagccc gtagcgggct gctacgggcg tctgacgcgg
     1921 tggaaagggg gaggggatgt tgtctacatg gctctgctgt agtgagtggg ttgcgctccg
     1981 gcagcggtcc tgatcaatcg tcaccctttc tcggtccttc aacgttcctg acaacgagcc
     2041 tccttttcgc caatccatcg acaatcaccg cgagtccctg ctcgaacgct gcgtccggac
     2101 cggcttcgtc gaaggcgtct atcgcggccc gcaacagcgg cgagagcgga gcctgttcaa
     2161 cggtgccgcc ggcctgctcc tcaagcacgg ccccaacagt gaagtagctg attgtcatca
     2221 gcgcattgac ggcgtccccg gccgaaaaac ccgcctcgca gaggaagcga agctgcgcgt
     2281 cggccgtttc catctgcggt gcgcccggtc gcgtgccggc atggatgcgc gcgccatcgc
     2341 ggtaggcgag cagcgcctgc ctgaagctgc gggcattccc gatcagaaat gagcgccagt
     2401 cgtcgtcggc tctcggcacc gaatgcgtat gattctccgc cagcatggct tcggccagtg
     2461 cgtcgagcag cgcccgcttg ttcctgaagt gccagtaaag cgccggctgc tgaaccccca
     2521 accgttccgc cagtttgcgt gtcgtcagac cgtctacgcc gacctcgttc aacaggtcca
     2581 gggcggcacg gatcactgta ttcggctgca actttgtcat gcttgacact ttatcactga
     2641 taaacataat atgtccacca acttatcagt gataaagaat ccgcgcgttc aatcggacca
     2701 gcggaggctg gtccggaggc cagacgtgaa acccaacaga cccctgatcg taattctgag
     2761 cactgtcgcg ctcgacgctg tcggcatcgg cctgattatg ccggtgctgc cgggcctcct
     2821 gcgcgatctg gttcactcga acgacgtcac cgcccactat ggcattctgc tggcgctgta
     2881 tgcgttgatg caatttgcct gcgcacctgt gctgggcgcg ctgtcggatc gtttcgggcg
     2941 gcggccggtc ttgctcgtct cgctggccgg cgctgctgtc gactacgcca tcatggcgac
     3001 ggcgcctttc ctttgggttc tctatatcgg gcggatcgtg gccggcatca ccggggcgac
     3061 tggggcggta gccggcgctt atattgccga tatcactgat ggcgatgagc gcgcgcggca
     3121 cttcggcttc atgagcgcct gtttcgggtt cgggatggtc gcgggacctg tgctcggtgg
     3181 gctgatgggc ggtttctccc cccacgctcc gttcttcgcc gcggcagcct tgaacggcct
     3241 caatttcctg acgggctgtt tccttttgcc ggagtcgcac aaaggcgaac gccggccgtt
     3301 acgccgggag gctctcaacc cgctcgcttc gttccggtgg gcccggggca tgaccgtcgt
     3361 cgccgccctg atggcggtct tcttcatcat gcaacttgtc ggacaggtgc cggccgcgct
     3421 ttgggtcatt ttcggcgagg atcgctttca ctgggacgcg accacgatcg gcatttcgct
     3481 tgccgcattt ggcattctgc attcactcgc ccaggcaatg atcaccggcc ctgtagccgc
     3541 ccggctcggc gaaaggcggg cactcatgct cggaatgatt gccgacggca caggctacat
     3601 cctgcttgcc ttcgcgacac ggggatggat ggcgttcccg atcatggtcc tgcttgcttc
     3661 gggtggcatc ggaatgccgg cgctgcaagc aatgttgtcc aggcaggtgg atgaggaacg
     3721 tcaggggcag ctgcaaggct cactggcggc gctcaccagc ctgacctcga tcgtcggacc
     3781 cctcctcttc acggcgatct atgcggcttc tataacaacg tggaacgggt gggcatggat
     3841 tgcaggcgct gccctctact tgctctgcct gccggcgctg cgtcgcgggc tttggagcgg
     3901 cgcagggcaa cgagccgatc gctgatagag gtttatagcg gcttcgttcc cttccgcaac
     3961 cgtcagcatg atctgctcca catgctcgcg accatagtct atcaccgccc gcagcagcat
     4021 accggcgacc cctcggcctc gctgttcggg ctccacgaaa acgccggaca gatgcgcctt
     4081 gtgagcgtcc ttggggccgt cctcctgttt gaagaccgac agcccaatga tctcgccgtc
     4141 gatgtaggcg ccgaatgcca cggcatctcg caaccgttca gcgaacgcct ccatgggctt
     4201 tttctcctcg tgctcgtaaa cggacccgaa catctctgga gctttcttca gggccgacaa
     4261 tcggatctcg cggaaatcct gcacgtcggc cgctccaagc cgtcgaatct gagccttaat
     4321 cacaattgtc aattttaatc ctctgtttat cggcagttcg tagagcgcgc cgtacgtccc
     4381 gagcgatact gagcgaagca agtgcgtcga gcagtgcccg cttgttcctg aaatgccagt
     4441 aaagcgctgg ctgctgaacc cccagccgga actgacccca caaggcccta gcgtttgcaa
     4501 tgcaccaggt catcattgac ccaggcgtgt tccaccaggc cgctgcctcg caactcttcg
     4561 caggcttcgc cgacctgctc gcgccacttc ttcacgcggg tggaatccga tccgcacatg
     4621 aggcggtcgc aagggcggac gaaaattcgc gctcaccaaa gctcaggtgc gtctcgcgca
     4681 agccgccatg gcccagcgcg atacttcagt ttccgatctc tgcaaggaac tcggcatcga
     4741 gcgcgtcact ctctaccgat atgtcggtcc caaaggcgag ctcagagacc atggaaagca
     4801 tgttctcgga cttacgtcgc aactcgtttc ttttcgcaag ttgagccacc tc
//
