LOCUS       NZ_CP047552             4074 bp    DNA     circular CON 25-MAY-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            SJTUF10057 plasmid unnamedB, complete sequence.
ACCESSION   NZ_CP047552
VERSION     NZ_CP047552.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09759452
            Assembly: GCF_004324145.2
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Typhimurium (Salmonella
            typhimurium)
  ORGANISM  Salmonella enterica subsp. enterica serovar Typhimurium
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4074)
  AUTHORS   Shang,D., Zhao,H., Chang,J. and Shi,C.
  TITLE     Salmonella enterica subsp. enterica serovar Typhimurium
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4074)
  AUTHORS   Shang,D., Zhao,H., Chang,J. and Shi,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JAN-2020) School of Agriculture and Biology, Shanghai
            Jiao Tong University, 800 Dongchuan Road, Minhang District,
            Shanghai, Shanghai 201100, China
REFERENCE   3  (bases 1 to 4074)
  AUTHORS   He,Y., Zhao,H., Zhang,Z., Zhou,X., Shi,C. and Shi,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-AUG-2018) School of Agriculture and Biology, Shanghai
            Jiao Tong University, No. 800 Dongchuan Road, Shanghai 200240, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SOAPdenovo v. 2.04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_004324145.2-RS_2024_05_25
            Annotation Date                   :: 05/25/2024 04:58:06
            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)                     :: 5,162
            CDSs (total)                      :: 5,037
            Genes (coding)                    :: 4,913
            CDSs (with protein)               :: 4,913
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 34 of 124
            Pseudo Genes (incomplete)         :: 100 of 124
            Pseudo Genes (internal stop)      :: 20 of 124
            Pseudo Genes (multiple problems)  :: 27 of 124
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047552.1.
            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..4074
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /strain="SJTUF10057"
                     /serovar="Typhimurium"
                     /isolation_source="feces"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="unnamedB"
                     /geo_loc_name="China: Shanghai"
                     /lat_lon="31.23 N 121.47 E"
                     /collection_date="2006"
                     /collected_by="Shanghai Municipal Center for Disease
                     Control and Prevention"
     gene            join(1955..4074,1..40)
                     /gene="mobQ"
                     /locus_tag="DXN07_RS25750"
                     /old_locus_tag="DXN07_025665"
     CDS             join(1955..4074,1..40)
                     /gene="mobQ"
                     /locus_tag="DXN07_RS25750"
                     /old_locus_tag="DXN07_025665"
                     /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_084568118.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRTERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREVPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(298..990)
                     /locus_tag="DXN07_RS25755"
                     /old_locus_tag="DXN07_025670"
     CDS             complement(298..990)
                     /locus_tag="DXN07_RS25755"
                     /old_locus_tag="DXN07_025670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1522..1776)
                     /gene="mobC"
                     /locus_tag="DXN07_RS25760"
                     /old_locus_tag="DXN07_025675"
     CDS             complement(1522..1776)
                     /gene="mobC"
                     /locus_tag="DXN07_RS25760"
                     /old_locus_tag="DXN07_025675"
                     /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_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(1778..1954)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1955..2313
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.333"
                     /coverage="100.0"
                     /evalue="8.460000000000002e-179"
     Typing          complement(299..990)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1869..4072
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.184"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 caccaccgag aggagacatg atcgcggttg gtcacagtga atgtgaacaa tattttgttt
       61 tgtttaacat cgtgttatgt tcgttgatgt tcttcgatgt tcatcgacag ggatgaatgc
      121 aagaagcaca ctcacataac gcaagcatag ttttgttttt ccgcccccaa aaattggggg
      181 ttcttttttc gctgcatcag agcgtttttg gcgcaatttt tcacttcaat agtaccttcg
      241 cactactaac acaaaaaaaa cgcagcaggg agcgttttag gtgccttaaa atcgatttta
      301 gatcgtcatc ttgatctgtt tgtcttcctt gaagcgaaaa tgcagggcta caaccgtgcg
      361 cccctttttg atcgtctcaa ccgttacagc caggtcgctt tttttgttca gttcgtcaac
      421 acagggtttt attagtattt tatttaagtc tctgaattgt ttgtatttat tttcaatccc
      481 taacattgaa cgaaagtcat taagagcaat aattctctct cccgtactgc ggaattgctg
      541 gaggaactcg tatattctta tactgtaact acttgataaa cctgatatgt tttttataac
      601 aacgcgcgtg aattgcccct tcagttgcgt cagataaggc attaccgcgt cagaaaaggt
      661 tattcgagcc ttggcctcac ctttagcgta ctgtgcccga tactggatcc agcggaactc
      721 ctcacgcttc tcgtcattct tgagaatgat cgacctgtcc cataaacgat cgatcgcttc
      781 ctgtaactga acctcggcat ttttccgccc catgtcaggg aatgaatcaa aatattccgc
      841 agcggtaatg gtcattgtct tttgcaattc agcatcagca ccagatttca atcgactgat
      901 acacagcaac agaaaacgtt gttcctgtag ggtcaacttg tagctggcct caaccaaagc
      961 attcgacttg taggcaatca agtccgacat acaaagatcc cgttcaaatg tggtgatgct
     1021 ttaatgtgcc ccacaaataa gaaatgtgga atattttttt ttatatcctc acatttctgt
     1081 gaataacacc ttaaattcct ccacctttac cttaaattcc tccacctaaa caccttaaat
     1141 tcctccacat ataccttaaa ttcctccaca tataccactg caacatattg attttattaa
     1201 tgaatttcgc ccctaaaaca agtattaaaa acaagatctt aaaaacaaga tctaaaaact
     1261 taacggcgag cctgtggata acttggggtg ctgaaaacaa aaaacaaata aaaacaatgt
     1321 gttgcaagaa agtagaattg caagttccga atactcccct tccaaccctg tggaaatcca
     1381 gtattcatgc gggttcagcg catatcacct gccgaaaaac cgtgcgtatg tgctcaacct
     1441 ggcgacggat tcacttccgc ttcctcgccc actcgctcgc taacgctcgg tcgctggggc
     1501 tgcggcgagc ggacgataca atcactgtcc tggcagcgcc tccagctcgt taatcagcgg
     1561 cagtatgcgc gtcacatcag cctgtcgtgt cacctctgcc ttcaggaact ggagtaacca
     1621 ggcacgcaac tgcacctcct ccggctttct gacctttgcc agcaatgctg cacccacaac
     1681 aaccttctgc gctgtgtcca agctccggct cttcgccttc aggcgctgta atctcgcctc
     1741 agcatcagca atcttctgtt cgagcgttct gctcatgatg taactccgtg cgcgatgaaa
     1801 aatcgcattt tagcgcgtca ctggtagttt aaaaactgag ctggcataat gcacggcaaa
     1861 tcacgaagtg cgcacttata caatctccac tccgtttcga ttgtgtgcgc cctgcggggc
     1921 tgaaagaaaa ctacaaaaag gcattacggc agaaatggcg atttatcatc tcagcatgaa
     1981 aattatctcc agaagcagcg gctacagcgc cgtagcttcc gctgcctatc gttccggttc
     2041 actgatgctt gatgagcgta ccggactgac tcacgactac acccgcaaaa gcggtgtggc
     2101 tgaagctgtg attctgaccc ccgcgacagc ccctgcctgg tgtacgaacc gtgccgaact
     2161 ctggaatgcc gttgagaagg ccgaacgccg gaagaactca caacttgcgc gggaaattga
     2221 actcgctatc ccccgtgaac tgccgcagga tgccgcacgg gaaaccgttc tcgcctttgt
     2281 cagagaaaac tttgtcagtc agggcatgat tgctgatgtg gcgttccatc acatggataa
     2341 aacaaatccc catgcgcaca tcatgctgac cacgagggct gtcggacctg ctgggttcgg
     2401 cggaaaggtc agggactgga acgaccggac acatgccgag acgtggcgtg catcatgggc
     2461 tgaccatgca aacagagcac tggcgaacgc cggttatcag gaagagatag accatcgttc
     2521 atacgagcga caggggcttg agaaaacgcc tggtattcac ctcggaaagt ctgcctgtgc
     2581 gatggaaaca cgcggtatcg aaacagaacg cggcgaacag aatcgtctga ttaacaggct
     2641 taacctggaa atacagattt cccgcactga actcaggaac agcgggctga cagagcctgc
     2701 ccgccgtgtg gctgaccttc tgaatatcgt gcttcctgac aacgcaactt cgtacacact
     2761 acgtgacatc atcgaagcgt tgccgaagga cagtaatgcg gcatggaaac tcaccagtaa
     2821 tgccatgtcg atgatggcag atatgcaggc gacgcgcaga cgctgggaag agctgaacac
     2881 cgaacgaaag gaagcgatga gccatgctgc cagcctgaaa aaatcatcac cgttttcgtc
     2941 cggtttttcc cgtattcccc tgatgcaatg ggcggcaccg gaataccgta gcgaacaggg
     3001 aaaaattcag tcgctgagcc agcaaatgga aaaattgcga cagcattacc ggaaggtgga
     3061 gaaacaggac attcccgcga gtcagacggc atttgaaaaa cagtggcagc agtggggggc
     3121 atccggcctt gcagctctca gagtccagtt gcttaaacgt gaagaggaat tgcgccggaa
     3181 ggagcaggag gatacagaac gtagtcgcac ggagcgacga gcggaacagc tcaggaaaaa
     3241 tgacaatgcc gttatggatt caggggtact gagcgcagtc gttacggggt atggcgaggc
     3301 ccccatgcct ggtaacgggg aaatgacctg ttaccttctg cttcacaacc ggaacggaga
     3361 atacacgctc tgggggaacg agctggagaa ataccgcacc agaatctttg agcgtgttga
     3421 tttaatgcgt gacaggagtg gttatatctg tgaccgaagc gaaatcggtc aacatccacc
     3481 actgcaacgt gtttattcct ctgcgacctt tgagcaactt ctgacgcagg tttgccagac
     3541 atggccgcaa tatacccgca atctccgcca gccgaagaca tggccggagt ctttctgtct
     3601 tggagaagac cgccagccag ccatgccatc actggcagca aggaaggtgg attttacgca
     3661 gggacgtctg ccaccgacgc tgatgccggt aatgagttct gtcgaccggg aaacccgcca
     3721 gcttcagctt ttgctggtca tgggcgtgga tgactctctg ggcggtgttg tccggcttaa
     3781 tggtacgctg tatcccgcgt ttgccgttcc ctcagccgat aacagccagc tggtcatcag
     3841 tgcactgacc gataaggggt tacggtatgc agggtatggt gttgccgtaa atcacgatgc
     3901 agacagccac atatcacctg cgccggaact tatggagttt catctgaaaa cccgtgaggt
     3961 accgcttttt gctgccgtca acacaccaga aaaacagccg gatcatctgt tccgctcgct
     4021 gggtttcaat cgtacctggg acgaatggcg gcgcgaggaa gatgcaagaa caca
//
