LOCUS       NZ_CP065110             3609 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Salmonella enterica subsp. enterica strain SENT0044 plasmid pS44-4k,
            complete sequence.
ACCESSION   NZ_CP065110
VERSION     NZ_CP065110.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16807076
            Assembly: GCF_031039875.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica
  ORGANISM  Salmonella enterica subsp. enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3609)
  AUTHORS   Huang,T.-W.
  TITLE     Whole-genome sequencing of ceftriaxone-resistant Salmonella enterica
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3609)
  AUTHORS   Huang,T.-W.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-NOV-2020) Department of Microbiology and Immunology,
            School of Medicine, College of Medicine, Taipei Medical University,
            No. 250, Wuxin Street, Taipei 11031, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology             :: Illumina, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/01/2023 16:42:57
            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)                     :: 4,737
            CDSs (total)                      :: 4,619
            Genes (coding)                    :: 4,511
            CDSs (with protein)               :: 4,511
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 32 of 108
            Pseudo Genes (incomplete)         :: 79 of 108
            Pseudo Genes (internal stop)      :: 24 of 108
            Pseudo Genes (multiple problems)  :: 26 of 108
            Pseudo Genes (short protein)      :: 1 of 108
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065110.1.
            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..3609
                     /organism="Salmonella enterica subsp. enterica"
                     /mol_type="genomic DNA"
                     /strain="SENT0044"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:59201"
                     /plasmid="pS44-4k"
                     /geo_loc_name="Taiwan"
                     /collection_date="2018-10"
     gene            115..438
                     /gene="mobA"
                     /locus_tag="I0P41_RS23670"
                     /old_locus_tag="I0P41_23540"
     CDS             115..438
                     /gene="mobA"
                     /locus_tag="I0P41_RS23670"
                     /old_locus_tag="I0P41_23540"
                     /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_001699352.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRIGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            870..2387
                     /locus_tag="I0P41_RS23675"
                     /old_locus_tag="I0P41_23545"
     CDS             870..2387
                     /locus_tag="I0P41_RS23675"
                     /old_locus_tag="I0P41_23545"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000739598.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NERD domain-containing protein"
                     /protein_id="WP_020833675.1"
                     /translation="MKKNIVRQVLESYGPCISSELAERIKRQNPSMSSDAIRKMISRST
                     DIGKLPFLRFSHNRRFIYLKDDFGSFKFWRALKKCMREANSAYSHAILSVINNGGYLKV
                     KDFGIVSGSPIKQAKHLSYESVLKNLLSAKILRSVYIDGIGDCVLINNNIANDISIFNM
                     ANCESFFDKPIFELIKAWLRNLGIVAFNQIKTKYDGENNPVVGSFEWDITAPSYVSPLA
                     EYSSDGLIPGFVVCDFALGFNRNEITTDAADTFIRKVQMTKSSRTNQRIMFVLFARRFE
                     KNAFNKLRSEGVLAITIANAFGNKVDESLARLSKVIQGTLSIERHPDELLQMVKDLESI
                     SGENGNLRGYIFELFVSSQICNFYGYGNVRINKEYKINGKHAEADVVLETNDDIYIVEC
                     KNVKTLPSMEVSLWMKTRVPIINSYYKSNNPDNKNIHHRLWVTGNIYPKDINRLDEFKC
                     NNKKIDVDYLFGQSLDDFFYQKKQVFNLYRKVISPDYKKGQIPDFDL"
                     /name="NERD domain-containing protein"
     gene            complement(2592..2750)
                     /locus_tag="I0P41_RS23680"
     CDS             complement(2592..2750)
                     /locus_tag="I0P41_RS23680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_071532985.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPKRHDLSPLAAATGNWNSRAMIM
                     RSVLQSS"
                     /name="replication initiation protein"
     gene            complement(3246..3440)
                     /locus_tag="I0P41_RS23685"
                     /old_locus_tag="I0P41_23550"
     CDS             complement(3246..3440)
                     /locus_tag="I0P41_RS23685"
                     /old_locus_tag="I0P41_23550"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041642.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAESGTGV"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2..106
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.449999999999997e-48"
     Typing          3476..3609
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.400000000000001e-64"
     Typing          complement(2683..3203)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.905"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          116..435
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="6.92e-62"
ORIGIN
        1 cttgctgaca ggacaggatg tgcaattgtt ataccgcgca tacatgcacg ctattacaat
       61 taccctggtc agggctttgc cccgacaccc atgtcagata cggagccatg ttttatgaca
      121 aaacgaagtg gaagtaatac gcgcaggcgg gctatcagtc gccctgttcg tctgacggca
      181 gaagaagacc aggaaatcag aaaaagggct gctgaatgcg gcaagaccgt ttccggtttt
      241 ttacgggcgg cagctctcgg taagaaagtt aactcactga ctgatgatcg ggtactgaaa
      301 gaagttatga gactgggggc gttacagaaa aaactcttta tcgacggcaa gcgtatcggg
      361 gacagggagt atgcggaggt gctgatcgct attacggagt atcaccgtgc cctgttatcc
      421 aggcttatgg cagattagct tcccggggag aaaactgttg aaaacagacg gtatgaacac
      481 cgtaagctcc caaagtgatc accattcgct ttcatgcata actatgcagc gagctgaaaa
      541 cgatcctgac gcatccttcc tatttttccg gggtaaaaca tctctttttg cggtgtctgc
      601 gtcagaatcg cgttcagcgc gtttcagtgg tgcgtacaat taagggatta tggtaaatag
      661 ggcggttgat atatgatgat gaaatgtcac aaacgtaaca tcttgatttt taaggataaa
      721 tctcgcaggt gtgttttttg tgatatgttg cttttgttaa atgtttgatt tttatgattt
      781 ttttctttgt gttttttttt gggatctata gatattacac gtagtgtaat tttataaata
      841 gcgtagtgtg acaaaaataa gatgaattta tgaaaaaaaa cattgttaga caagtgcttg
      901 agagttatgg tccgtgcata tcttctgaac ttgctgagag gattaagcgt cagaatcctt
      961 ctatgtcatc tgatgcaata cgtaaaatga tctctcgaag cactgatatt ggtaagttgc
     1021 catttttaag atttagtcat aacaggagat tcatttatct aaaagatgac tttggtagct
     1081 tcaaattttg gcgggcgctc aaaaaatgta tgcgtgaggc aaattcggcg tattctcacg
     1141 ctatactttc cgtaattaat aatggcggat acttgaaggt aaaggatttc gggattgtgt
     1201 ctggctctcc gataaagcag gccaagcatt taagttatga atctgttcta aaaaatctgc
     1261 tttcagctaa aatacttaga tctgtgtata ttgatggtat tggtgattgt gttttgataa
     1321 ataataatat agctaatgat atcagcatct ttaatatggc aaattgcgag tctttttttg
     1381 ataagccaat atttgaactg attaaggcat ggttgcgaaa tttaggtatt gtggctttta
     1441 atcaaataaa aacaaaatat gatggagaga acaatcctgt ggttggttct ttcgagtggg
     1501 atataacagc gccaagttat gtgtcccctc ttgctgaata ttccagcgat ggactcatcc
     1561 caggttttgt tgtctgtgat tttgctctag ggtttaatcg aaatgaaatt accaccgatg
     1621 ctgctgatac cttcataaga aaagttcaga tgaccaagtc ctctaggaca aaccagagga
     1681 ttatgtttgt tctttttgct agacgttttg agaagaatgc cttcaacaag ctaaggagtg
     1741 aaggggttct ggctataact atagctaatg cgtttggtaa taaggtcgat gagagcttgg
     1801 ccagactatc gaaggtgatt cagggaactt tatctattga aagacatcct gatgagttac
     1861 ttcaaatggt aaaagatctg gagtctatct ctggagagaa tggaaattta agggggtata
     1921 tttttgagct ttttgtttcc tctcaaattt gtaatttcta tggttatgga aatgttcgta
     1981 ttaataaaga atataaaata aacggtaaac atgccgaagc tgatgttgta ttggaaacta
     2041 acgatgatat ttatatcgtt gagtgcaaaa atgttaagac tttaccttcg atggaggtta
     2101 gtctttggat gaaaacaaga gtgccaatta taaattccta ctacaaatca aataaccctg
     2161 ataacaaaaa tatacatcat cgtttgtggg ttacggggaa tatatatcct aaagatataa
     2221 accgattgga cgagtttaaa tgtaataata agaagattga tgttgattat ttatttggtc
     2281 agtctttgga tgattttttc taccaaaaaa aacaagtgtt taatttatat aggaaagtca
     2341 tttcgccaga ttataaaaaa gggcaaatac ccgattttga cttatagaat gacgttttct
     2401 agtctctgca tttcttgacg atgacggctt gaaaagcgta tcttcctcca tgaaacgaaa
     2461 aaaccacccg gcaaggtggt ttttcgaagg ttagttaatc ctggcagatt acctaaccta
     2521 ggtaactggc ttcagcagag cgcagatacc aaatcctgtc ctttaagtgt agccgtagtt
     2581 ggggcatcac ttcaagaact ctgtagtacg gaccgcatta tcatcgctct gctattccag
     2641 ttaccagtgg ctgctgccag tggcgataag tcgtgtcttt tcgggttgga ctcaagacga
     2701 tagttaccgg ataaggcgca gcggtcgggc tgaacggggg gttcgtgcac acagcccagc
     2761 ttggagcgaa cgacctacac cgggccgaga taccaacagc gtgagctatg agaaagcgcc
     2821 acgcttcccg aagggagaaa ggcggacagg tatccggtaa acggcagggt cggaacagga
     2881 gagcgcacga gggagcttcc agggggaaac gcctggtatc tttatagtcc tgtcgggttt
     2941 cgccacctct ggcttgagcg tcgatttttg tgatgctcgt caggggggcg gagcctatgg
     3001 aaaaacgcca ccggcgcggc ctttttcggg ttcttgtttt ttgctcacat gtttcttttg
     3061 gctttatccc ctgattctgt ggataaccgc attaccgtct ttgagtgagc tgataccgct
     3121 cgccgcagcc gaacgaccga gcgtagcgag tcagtgagcg aggaagcgga agagcgcctt
     3181 atgtggcatt ttctccttac gcaccggtat accgttctgc atcctgtctg gagcaggata
     3241 cactgttata ccccggtgcc actttccgct tcaaagcgtg tctgtatgct gttctggagt
     3301 tcttccgcga gttcgtgcag cttctcacac atggcggcct gttcgtcggc atcgagtgcg
     3361 tccagctttt cgagcagcgt caggctctgg ctttttatga atcccgccat gttgagtacg
     3421 gtttgctgct gcttgttcat cttttcgttt tctccgttct gtctgtcatc tgcgttatgt
     3481 gattatatcg cgtaccactt ttcgactgtt ttgctgccgc tattctgccg cctggctttt
     3541 tgacgggcat ttctgtcaga caacactgtc actgccaaaa aactgccgtg cctttgtcgg
     3601 taattcgag
//
