LOCUS       NZ_CP065089             4072 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Salmonella enterica subsp. enterica strain SENT0143 plasmid
            pS143-4k, complete sequence.
ACCESSION   NZ_CP065089
VERSION     NZ_CP065089.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16807082
            Assembly: GCF_031039035.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica
  ORGANISM  Salmonella enterica subsp. enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Huang,T.-W.
  TITLE     Whole-genome sequencing of ceftriaxone-resistant Salmonella enterica
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  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                   :: 630x
            Sequencing Technology             :: Illumina, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/01/2023 16:49:34
            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)                     :: 4,831
            CDSs (total)                      :: 4,716
            Genes (coding)                    :: 4,596
            CDSs (with protein)               :: 4,596
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 120
            CDSs (without protein)            :: 120
            Pseudo Genes (ambiguous residues) :: 0 of 120
            Pseudo Genes (frameshifted)       :: 44 of 120
            Pseudo Genes (incomplete)         :: 93 of 120
            Pseudo Genes (internal stop)      :: 17 of 120
            Pseudo Genes (multiple problems)  :: 30 of 120
            Pseudo Genes (short protein)      :: 1 of 120
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065089.1.
            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..4072
                     /organism="Salmonella enterica subsp. enterica"
                     /mol_type="genomic DNA"
                     /strain="SENT0143"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:59201"
                     /plasmid="pS143-4k"
                     /geo_loc_name="Taiwan"
                     /collection_date="2019-07"
     gene            complement(join(3927..4072,1..109))
                     /gene="mobC"
                     /locus_tag="I0P36_RS24145"
                     /old_locus_tag="I0P36_24030"
     CDS             complement(join(3927..4072,1..109))
                     /gene="mobC"
                     /locus_tag="I0P36_RS24145"
                     /old_locus_tag="I0P36_24030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091744.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            288..2435
                     /gene="mobQ"
                     /locus_tag="I0P36_RS24150"
                     /old_locus_tag="I0P36_24035"
     CDS             288..2435
                     /gene="mobQ"
                     /locus_tag="I0P36_RS24150"
                     /old_locus_tag="I0P36_24035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /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_308415792.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLKIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGESGLAALRSQL
                     LKREEELRRKELEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQHPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGENRQPAMPSPVARRVDFTQGRLPPTLMPVM
                     SSVDRENRQLQLLLVMGVDDSLGGVVRLNGSLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADNHISPAPELMAFHLKTRETPLFAAVNTPEKQPDHLFRSLGFNHTWDEW
                     RREEHARTRVSGKKNDRDCSR"
                     /name="mobQ"
     gene            complement(2690..3397)
                     /locus_tag="I0P36_RS24155"
                     /old_locus_tag="I0P36_24040"
     CDS             complement(2690..3397)
                     /locus_tag="I0P36_RS24155"
                     /old_locus_tag="I0P36_24040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(111..287)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          288..646
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.222"
                     /coverage="100.0"
                     /evalue="3.97e-172"
     Typing          complement(2691..3397)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.294"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          202..2432
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.519"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctgcacccac aatgaccttc tgcgctgtgt ccaggctccg gctcttcgcc ttcaggcgct
       61 gtaatctcgc ctcagcatca gcaatcttct gttcgagcgt tctgctcatg atgtaactcc
      121 atgcgcgatg aaaaatcgca ttttagcgcg tcactagtag tttaaaaact gagctggcat
      181 aatgcacggc aaatcacgaa gtgcgcactt atacaatctc cactccgttt cgattgtgtg
      241 cgccctgcgg ggctgaaaga aaactgcaaa aaggcattac ggcagaaatg gcgatttatc
      301 atctcagtat gaaaatcatc tccagaagca acggctacag cgccgttgct tctgctgcct
      361 atcgttctgg ttcactaatg cttgatgagc gtaccggact gactcacgac tacacccgca
      421 aaagcggtgt ggctgaggct gtgattctga cccccgcgac agcccctgcc tggtgtacga
      481 atcgtgccga actctggaat gccgttgaga aggccgaacg ccggaagaac tcacaacttg
      541 cgcgggaaat tgaactcgcc atcccccacg aactgccgca ggatgccgca cgggaaaccg
      601 ttctcgcctt tgtcagagaa aactttgtca gtcagggcat gattgctgat gtggcgttcc
      661 atcacatgga taaaacaaat ccccatgcgc acatcatgct gaccacgagg gctgtcgggc
      721 ctgctgggtt cggcggaaag gtcagggact ggaacgaccg gacacatgcc gagacgtggc
      781 gtgcatcatg ggctgaccat gcaaacaggg cactggcgaa cgccggttat caggaagaga
      841 tagaccatcg ttcatacgag cgacaggggc ttgagaaaac gccgggtatt cacctcggaa
      901 agtctgcctg tgcgatggaa acacgcggta tcgaaacaga acgcggcgaa cagaatcgtc
      961 tgattaacag gcttaacctg gaaatacaga tttcccgcac cgaactcagg aacagcgggc
     1021 tgacagagcc tgcccgccgt gtggctgacc ttctgaagat cgggcttcct gacaacgcaa
     1081 cttcgtacac actacgtgac atcatcgaag cgttgccgaa ggacagtaac gcggcatgga
     1141 aactcaccag taacgccatg tcgatgatgg cagatatgca ggcgacacgc agacgctggg
     1201 aagagctgaa caccgaacga aaggaagcga tgagccatgc tgccagcctg aaaaaatcat
     1261 cgccgttttc gtccggtttt tcccgtattc ccctgatgca atgggctgca ccggaatacc
     1321 gtagtgagca gggaaaaatc cagtctctga gccagcaaat ggaaaaattg cgacagcatt
     1381 accggaaggt ggagaaacag gacattcccg cgagtcagac ggcatttgaa aaacagtggc
     1441 agcagtgggg ggaatccggc cttgcagctc tcagatccca gttgcttaaa cgtgaagagg
     1501 aattgcgccg gaaggagctg gaggatacag aacgtagtcg cgcggagcag ctcaggaaaa
     1561 atgacaatgc cgttatggat tcaggggtgc tgagagcagt cgttacggga tatggcgagg
     1621 ctcccatgcc tggtaacggg gaaatgacct gttaccttct gcttcacaac cggaacggag
     1681 aatatacgct ctgggggaac gagctggaga aataccgcac caggatcttt gagagtgttg
     1741 atttaatgcg tgacaggagt ggttatatct gtgaccgaag cgaaatcggt caacatccac
     1801 cactgcaacg tgtttattcc tctgcgacct ttgagcaact tctgacgcag gtttgccaga
     1861 catggccgca acatacccgc aatctccgcc agccgaagac atggccggag tctttctgtc
     1921 ttggagaaaa ccgccagcca gccatgccat caccggtggc aaggagggtg gattttacgc
     1981 agggacgtct gccaccgacg ctgatgccgg taatgagttc tgtcgaccgg gaaaaccgac
     2041 aacttcagct tttgctggtc atgggcgtgg atgactctct gggcggtgtt gtccggctta
     2101 atggttcgct gtatcccgcg tttgctgtcc cctccgccga taacaggcat ctggtcatca
     2161 gtgcgctgac cgataagggg ttacgatatg caggatatgg tgttgccgta aatcacgatg
     2221 cagacaacca catttcacct gcaccggaac ttatggcgtt tcatcttaaa acccgcgaga
     2281 caccgctttt tgctgccgtc aacacaccag aaaaacagcc ggatcatctg ttccgttcac
     2341 tgggctttaa tcacacctgg gatgaatggc ggcgcgagga gcatgcacga acacgtgtct
     2401 ccgggaagaa gaatgatcgc gactgttcac ggtaactgct gatagtattt tgttttgttt
     2461 tacatcgtgt tatgttctct gacattcatc gtaactggat gaatgtcaga tgcacacaga
     2521 ttgcacaaat ccaactttat cgttttcccg cccccactaa gttgggggtt cttttttttg
     2581 aacgccatag aatcgattat gaagcaattt tatctcacca gtagtaccat cgcatacctc
     2641 tcatggaaaa aacgcaacag agagcgtttt aggtgcctta aaatcgattc tagatcgtca
     2701 tcttgatctg tttgtcttcc ttgaagcgaa aatgcagggc tacaaccgtg cgcccctttt
     2761 tgatcgtctc aaccgttaca gccaggtcgc tttttttgtt cagttcgtca acacagggtt
     2821 ttattagatc cctgtttaac gttttgaaat ctttatattt accatcaagc atcagtgatg
     2881 atttaaaatc atcgagggcg ataatacgtt ccccagtact gcggaattgc tggagaatct
     2941 cgtatattct tatgctgtaa cttcttgata aattggagat atttttaata acaactctgg
     3001 tgaattgccc cttcaactgt gtcagataag gcattaccgc gtcagaaaaa gtgatttgtg
     3061 ctttcccctc tcccctcgcg tactgtgccc gatactgaat ccagcggaac tcctcgcgct
     3121 tctcgtcgtc cttgagaatg atcgacctgt cccacaaacg atcgatcgct tcctgtagct
     3181 gaacctcggc atttttccgc cccatatcag ggaatgaatc aaaatattcc gcagctgtaa
     3241 tggtcattgt cttttgcaat tcaggtgaag ctacgtcagt accggagtta agtcggctta
     3301 tgcagagcaa taagaaacgc tgttcttgta aagttagctt gtaactggcc tcaaccagcg
     3361 cattggactt ataggctatc agagggtttg atgtcatttt aaccaccagg ccaaagatga
     3421 ggtgagataa aaacctatca cctttagcat tggtgagcaa ttatatttcc accccccatt
     3481 tttctgtgaa tattacctta aatctcctca cctttacctt aaattacctc acccaagaac
     3541 cttaaattat atcaccttta ccttaaattt ccccacctat acacgtgtaa cgcattgttt
     3601 ttaatcagga atttcgaccc taaaacaagt attaaaaaca agtattaaaa acaagatcta
     3661 aaaacttaac ggcgagcctg tggataactt ggagtgctga aaataaaaat ccaataaaaa
     3721 caatgtgttg caaaaaacca ggattgaaga ttccgaatac accccctcca accctgtgga
     3781 aatccagtat tcatgcgggt tcagcgcata tcacctgtcg aaaaaccgtg cgtatgtgct
     3841 caacatggcg actgattcac ttccgcttcc tcgcccactc gctcgctaac gctcggtcgc
     3901 tgggctgcgg cgagcggacg atacaatcac tgctctggca gcgcctccag ctcgttaatc
     3961 agcggcagta ttcgcgtcac atcagcctgc cgtgtcacct ctgccttcag gaactggagt
     4021 aaccaggctc gcaactgcac ttcctccggc tttctgacct ttgccagcaa tg
//
