LOCUS       NZ_CP050766             3916 bp    DNA     circular CON 03-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Indiana strain SI111
            plasmid pSI111-2, complete sequence.
ACCESSION   NZ_CP050766
VERSION     NZ_CP050766.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14450156
            Assembly: GCF_012053145.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Indiana
  ORGANISM  Salmonella enterica subsp. enterica serovar Indiana
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3916)
  AUTHORS   Chen,Z.
  TITLE     Genomic analyses of multidrug-resistant Salmonella Indiana,
            Typhimurium, and Enteritidis isolates using MinION and MiSeq
            sequencing technologies
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3916)
  AUTHORS   Chen,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-MAR-2020) Joint Institute for Food Safety and Applied
            Nutrition, University of Maryland, 5145 Campus Drive, Patapsco
            Building, Suite 2134, College Park, MD 20742, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: SI111
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 124x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_012053145.1-RS_2024_06_03
            Annotation Date                   :: 06/03/2024 02:25:48
            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)                     :: 4,787
            CDSs (total)                      :: 4,669
            Genes (coding)                    :: 4,503
            CDSs (with protein)               :: 4,503
            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)              :: 166
            CDSs (without protein)            :: 166
            Pseudo Genes (ambiguous residues) :: 0 of 166
            Pseudo Genes (frameshifted)       :: 61 of 166
            Pseudo Genes (incomplete)         :: 125 of 166
            Pseudo Genes (internal stop)      :: 35 of 166
            Pseudo Genes (multiple problems)  :: 46 of 166
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP050766.1.
            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..3916
                     /organism="Salmonella enterica subsp. enterica serovar
                     Indiana"
                     /mol_type="genomic DNA"
                     /strain="SI111"
                     /serovar="Indiana"
                     /isolation_source="Diarrheal patient"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:286783"
                     /plasmid="pSI111-2"
                     /geo_loc_name="China:Shanghai"
                     /lat_lon="31.23 N 121.47 E"
                     /collection_date="2013-11-13"
                     /collected_by="Shanghai Municipal Center for Disease
                     Control and Prevention"
     gene            complement(716..1333)
                     /locus_tag="HEC81_RS23700"
                     /old_locus_tag="HEC81_23700"
     CDS             complement(716..1333)
                     /locus_tag="HEC81_RS23700"
                     /old_locus_tag="HEC81_23700"
                     /inference="COORDINATES: protein motif:HMM:NF025084.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RloB family protein"
                     /protein_id="WP_000166785.1"
                     /translation="MTKRKGGRNVPRVMYIYCEGEKTEPLYLESYISENSRRTLSVFKI
                     PKTRKNTPEQLVDEAIKKKNSSSTADGDEFWVVYDQEHLTTQSVLCHQRAWNKANRHGI
                     NIAISCVCFELWLLLHFGYTTRSFSSYENLMSDSPFKGLLPNYNKGSSSTYDVLKNRIG
                     KARKNAAQLEIFAKSDNENIHEPYKFPCYTSFHKLLDAIDNF"
                     /name="RloB family protein"
     gene            complement(1326..2681)
                     /locus_tag="HEC81_RS23705"
                     /old_locus_tag="HEC81_23705"
     CDS             complement(1326..2681)
                     /locus_tag="HEC81_RS23705"
                     /old_locus_tag="HEC81_23705"
                     /inference="COORDINATES: protein motif:HMM:NF024700.4"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_000498067.1"
                     /translation="MFVRLTIENFRSVKENFTLDLSASGSNSHLVNHIYKNAEMSVGTL
                     MSAGIYGANASGKSNVLMAFEAIKYIATDSGDLKEGTRIPCYEPYALSLATNESPVRFV
                     ADFYSVEGNRFNYEVKYIKDRIIFESLDYYPSRVKANLFTRDEGDTWETIKFGGHYRGG
                     VKKIPFFPNNSYLAKAGNNAASPDIIKEAYDFFRKGIRHIGLNEKIRISSFGKREEVVS
                     ETAEVLCMVDTGVAGISVREVESDLPIRMDDDIPPEIKEMIEEDYKYRYLFSHATEEGG
                     SVSFPMSRESEGTQKLFEIIPLIRSAFNNSMVVIIDELDNSLHPHIADLIVKLFNDPDV
                     NKKGSQLIFSTHNMQLMTPEKMRRDQIWFCEKNKGASALYSLDDFDKKKVKTTTPYASW
                     YDEGRFGGVPDINYLKVAKFLSGNAMTAIHDIDVDALAGDFFEEFNEDLSND"
                     /name="ATP-binding protein"
     gene            complement(3029..3352)
                     /gene="mobA"
                     /locus_tag="HEC81_RS23710"
                     /old_locus_tag="HEC81_23710"
     CDS             complement(3029..3352)
                     /gene="mobA"
                     /locus_tag="HEC81_RS23710"
                     /old_locus_tag="HEC81_23710"
                     /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_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            3638..3832
                     /locus_tag="HEC81_RS23715"
                     /old_locus_tag="HEC81_23715"
     CDS             3638..3832
                     /locus_tag="HEC81_RS23715"
                     /old_locus_tag="HEC81_23715"
                     /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_001041643.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3362..3603)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.9300000000000005e-124"
     Typing          2..475
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.375"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(3033..3352)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.2999999999999996e-62"
ORIGIN
        1 actcgctacg ctcggtcgtt cgactgcggc gagcggtgtc agctcactca aaggcggtaa
       61 tacggttatc cacagaatca ggggataaag ccggaaagaa catgtgagca aaaagcaaag
      121 caccggaaga agccagcacc gcaggcgttt ttccataggc tccgcccccc tgacgagcat
      181 cacaaaaatc gacgctcaag tcagaggtgg cgaaacccga caggactata aagataccag
      241 gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc gcttaccgga
      301 tacctgtccg cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgtagg
      361 tatctcggcc cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt
      421 cagcccgacc gctgcgtctt atccggtaac tatcgtcttg agtccaaccc ggtaagacac
      481 gacttaacgc cactggcagc agccactggt aaccgattta gaggagttag tcttgaagtc
      541 atgcgccagt taaggctaaa ctaaaaggac aagttttggt gactgcgctc ctctaagcca
      601 gttacccggt acataagttg gtagctcatg taccttctaa aaaccaccgt tggtagcggt
      661 ggtttttatt ttctatagat tacaaccagc aataagccat ggtcaatgga ttaattcaaa
      721 agttatcaat cgcatcaagt aacttatgaa atgatgtata acatggaaat ttatatggct
      781 catgtatatt ttcgttatct gatttagcga aaatctctag ttgcgccgca ttttttctcg
      841 ccttcccaat cctattcttc aaaacatcat atgttgaact actaccttta ttataatttg
      901 gcaacagacc cttaaacgga gagtcagaca ttaaattttc ataagatgaa aaagatcttg
      961 ttgtataacc aaagtgcaac aacaaccaca gttcaaaaca aacacaagat atagctatat
     1021 ttataccgtg tctattagct ttgttccacg ccctttgatg gcacaaaaca gactgcgtag
     1081 tcaaatgctc ttgatcataa acgacccaaa actcatcacc atccgcagtg gatgatgaat
     1141 tctttttctt tatcgcctca tctactagct gctctggtgt atttttcctt gttttaggta
     1201 ttttaaacac actcaacgtt cttcttgaat tttcagatat ataagattca agatacaacg
     1261 gctccgtctt ctccccttca caatatatat acatcactcg aggaacattt ctccctccct
     1321 tccttttagt cattagaaag atcctcgtta aactcttcga aaaaatcacc agcaagagca
     1381 tcaacatcaa tatcatgaat agcagtcata gcatttcctg ataggaattt agctactttc
     1441 aaataattaa tatcaggaac gccgccaaac cggccctcat cataccaact agcataaggt
     1501 gttgttgttt ttactttttt cttatcaaaa tcatctaaac tgtataatgc cgaagcacct
     1561 ttgttttttt cgcaaaacca tatctgatcc cttctcattt tttcaggagt catcaactgc
     1621 atattatgcg tagagaatat tagctgagat ccctttttgt taacatcagg atcattaaat
     1681 agcttaacaa ttagatctgc aatatgtgga tgcaaactat tatctagctc atcgataatc
     1741 acaaccatgc tgttattaaa tgcacttcta attaaaggta ttatttcaaa taacttctga
     1801 gtgccttcag actctctgga cataggaaaa gaaacactcc cgccctcctc agttgcatga
     1861 gaaaacaaat atcgatactt ataatcctcc tctatcattt cttttatttc tggaggaata
     1921 tcatcatcca ttcttattgg taaatcagat tctacttctc gcacggatat tccagcaaca
     1981 cctgtatcaa ccatgcacag aacctcagcg gtttcactta ctacttcctc tcttttacca
     2041 aaagatgaga ttcttatttt ttcattaaga cctatatgcc ttatcccttt cctaaaaaag
     2101 tcataagctt ctttaattat atctggagat gccgcattat taccggcctt ggccaaatat
     2161 gagttattag ggaagaatgg tatttttttc accccacctc tataatgacc accaaactta
     2221 attgtttccc atgtatcgcc ttcatcccta gtaaacaaat tagcctttac cctagacgga
     2281 tagtaatcca atgactcgaa tataattcga tctttaatat atttaacctc ataattaaaa
     2341 cgattcccct caacagagta aaaatcagcc acaaaccgaa ctggtgactc attcgtagcc
     2401 aacgagaggg catacggttc gtagcatgga attcgagttc cttccttcag atccccgcta
     2461 tctgtagcaa tatatttaat agcctcaaaa gccatgagaa cgttggactt acctgacgca
     2521 ttcgccccat aaatcccagc actcataagt gttccaacag acatctcggc gtttttataa
     2581 atatgattaa ctaaatggct atttgagcca gacgcactta aatcaagcgt aaagttttcc
     2641 tttacggatc taaaattttc aatagtcaaa cgaacaaaca taggcaactc ctaaatgagt
     2701 tttttcgcca aaaaagcgaa aaaaaagcaa taaacaagat acagcacatg ctttaaattt
     2761 gaaacaacat catcataaag aatcttgtac gaccattcac cacacaacat ttaacataac
     2821 ctataaattg tacgcaccac tgaaacgcgc tgaacgcgat tctgacgcag acaccgcaaa
     2881 aagagatgtt ttaccccggg aaaacaggaa ggatgcgtca ggatcgtttt cagctcgctg
     2941 catagctatg catgaaagcg aatggtgatc actttgggag cttacggtgt tcataccgtc
     3001 tgttttcgac agttttctct ccgggaagct aatctgccat aagcctggat aacagggcac
     3061 ggtgatactc cgtaatagcg atcagcacct ccgcatactc cctgtccccg acacgcttgc
     3121 cgtcgataaa gagttttttc tgtaacgccc ccagtctcat aacttctttc agtacccgat
     3181 catcagtcag tgagttaact ttcttaccga gagctgccgc ccgtaaaaaa ccggaaacgg
     3241 tcttgccgca ttcagcagcc ctttttctga tttcctggtc ttcttctgcc gtcagacgaa
     3301 cagggcgact gatagcccgc ctgcgcgtat tacttccact tcgttttgtc ataaaacatg
     3361 gctccgtatc tgacatgggg tgtcggggcg aagccctgac cagggtaatt gtaatagcgt
     3421 gcatgtatgc gcggtataac aattacacat cctgtcctgt cagcaagttc gaattaccga
     3481 caaaggcacg gcagtttttt tggcagtgac agtattgtca ggcagaaatg cccgtcaaag
     3541 agtcagacgg cagaataccg gcggcaaaac tgtcgaaaag tggtacgcga tataatcaca
     3601 taacgcagat gacagacaga acggagaaaa cagaaagatg aacaagcagc agcaaactgt
     3661 actcaacatg gcgggcttca taaaaagcca gagcctgaca ctgctcgaaa agctggacgc
     3721 actcgatgcc gacgaacagg ccgccatgtg tgagaagctg cacgaactcg cggaagaact
     3781 ccagaacagc atacagacac gctttgaagt agaaaatagc acagagatat aacgctcagg
     3841 gcaggatgcc gaacggcaca acagagcgta aggagaaaat gtcacataag gcgctcttcc
     3901 gcttcctcgc tcactg
//
