LOCUS       NZ_CP039858             4073 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain
            PNCS014876 plasmid p15-0756.2, complete sequence.
ACCESSION   NZ_CP039858
VERSION     NZ_CP039858.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11333168
            Assembly: GCF_005160385.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:-
  ORGANISM  Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:-
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4073)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K., Robertson,J.
            and Nash,J.H.E.
  TITLE     Complete genome sequences of Canadian Typhimurium and I
            1,4,[5],12:i:-
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4073)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K., Robertson,J.
            and Nash,J.H.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-APR-2019) Public Health Agency of Canada, National
            Microbiology Laboratory at Guelph, 110 Stone Road West, Guelph,
            Ontario N1G3W4, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: APR-2019
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 13:27:59
            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)                     :: 5,148
            CDSs (total)                      :: 5,025
            Genes (coding)                    :: 4,899
            CDSs (with protein)               :: 4,899
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 126
            CDSs (without protein)            :: 126
            Pseudo Genes (ambiguous residues) :: 0 of 126
            Pseudo Genes (frameshifted)       :: 42 of 126
            Pseudo Genes (incomplete)         :: 97 of 126
            Pseudo Genes (internal stop)      :: 19 of 126
            Pseudo Genes (multiple problems)  :: 29 of 126
            Pseudo Genes (short protein)      :: 1 of 126
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP039858.1.
            Bacteria and source DNA available from 15-0756.
            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..4073
                     /organism="Salmonella enterica subsp. enterica serovar
                     1,4,[5],12:i:-"
                     /mol_type="genomic DNA"
                     /strain="PNCS014876"
                     /serovar="1,4,[5],12:i:-"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:2583588"
                     /plasmid="p15-0756.2"
                     /geo_loc_name="Canada: SK"
                     /collection_date="2015-02-03"
                     /collected_by="Roy Romanow Provincial Laboratory"
     gene            1..2148
                     /gene="mobQ"
                     /locus_tag="E5O15_RS25970"
                     /old_locus_tag="E5O15_25970"
     CDS             1..2148
                     /gene="mobQ"
                     /locus_tag="E5O15_RS25970"
                     /old_locus_tag="E5O15_25970"
                     /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_001029354.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2406..3107)
                     /locus_tag="E5O15_RS25975"
                     /old_locus_tag="E5O15_25975"
     CDS             complement(2406..3107)
                     /locus_tag="E5O15_RS25975"
                     /old_locus_tag="E5O15_25975"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3641..3895)
                     /gene="mobC"
                     /locus_tag="E5O15_RS25985"
                     /old_locus_tag="E5O15_25985"
     CDS             complement(3641..3895)
                     /gene="mobC"
                     /locus_tag="E5O15_RS25985"
                     /old_locus_tag="E5O15_25985"
                     /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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          2..359
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3897..4073)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          complement(2407..3107)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..2145
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.106"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggcgattt atcatctcag catgaaaatt atctccagaa gcagcggcta cagcgccgta
       61 gcttccgctg cctatcgttc cggttcactg atgcttgatg agcgtaccgg actgactcac
      121 gactacaccc gcaaaagcgg tgtggctgag gctgtgattc tgacccccgc caccgcccct
      181 gcctggtgta cgaaccgtgc cgaactctgg aatgccgttg agaaggccga acgccggaag
      241 aactcacaac ttgcgcggga aattgaactc gccatccccc acgaactgcc gcaggatgcc
      301 gcacgggaaa ccgttctcgc ctttgtcaga gaaaactttg tcagtcaggg catgattgct
      361 gatgtggcgt tccatcacat ggataaaaca aatccccatg cgcacatcat gctgaccacg
      421 agggctatcg gacctgctgg gttcagcgga aaggtcaggg actggaacga ccggacacat
      481 gccgagacgt ggcgggcatc atgggctgac catgcaaaca gggcactggc gaacgccggt
      541 tatcaggaag agatagacca tcgttcatac gagcgacagg ggcttgagaa aacgcctggt
      601 attcacctcg gaaagtctgc ctgtgcgatg gaaacacgcg gtatcgaaac agaacgcggc
      661 gaacagaatc gtctgattaa caggcttaac ctggaaatac agatttcccg caccgaactc
      721 aggaacggag ggctgacaga gcctgcccgc cgtgtggctg accttctgaa tatcgggctt
      781 cctgacaacg caacttcgta cacactacgt gacattatcg aagcgttgcc gaaggacagt
      841 aactcggcat ggaaactcac cagtaatgcc atgtcgatga tggcagatat gcaggcgacg
      901 cgcagacgct gggaagagct gaacaccgaa cgaaaggaag cgatgagcca tgctgccagc
      961 ctgaaaaaat catcgccgtt ttcgtccggt ttttcccgta ttcccctgat gcaatgggcg
     1021 gcaccggaat accgtagtga gcagggaaaa atccagtctc tgagccagca aatggaaaaa
     1081 ttacgacagc attaccggaa ggtggagaaa caggacattc ccgcgagtca gatggcattt
     1141 gaaaaacagt ggcagcagtg gggggaatcc ggccttgcag ctctcagagc ccagttgctt
     1201 aaacgtgaag aggaattgcg ccggaaggaa caggaagata ctgaacgtag tcgcgcggag
     1261 cagctcagga aaaatgacaa tgccgttatg gattcagggg tgctgagagc agtcgttacg
     1321 gggtatggcg aggctcccat gcctggtaac ggggaaatga cctgttacct tctgcttcac
     1381 aaccggaacg gagaatatac gctctggggg aacgagctgg agaaataccg caccagaatc
     1441 tttgagagtg ttgatttaat gcgtgacagg agtggttata tctgtgaccg aagcgaaatc
     1501 ggccaacgtc cgccactgca acgtgtttat tcctctgcaa cctttgagca actgctgacg
     1561 caggtttgcc agacatggcc gcaacatacc cgcaatctcc gccagccgaa gacatggccg
     1621 gagtctttct gtcttggaga agaccgccag ccagccatgc catcaccagc ggcaaggaag
     1681 gtggatttta tgcagggacg tctgccaccg acgctgatgc cggtcatgag ttctgtcgac
     1741 cgggaaaccc gccagcttca gcttttgctg gtcatgggcg tggatgactc tctgggcggt
     1801 gttatccggc ttaatggtac gctgtatccc gcgtttgccg ttccctcagc cgataacagg
     1861 catctggtca tcagtgcgct gaccgataag gggttacggt atgcagggta tggtgttgcc
     1921 gtaaatcacg atgcagacag ccacatatca cctgcaccag aactgatgca gtttcatctg
     1981 aaaacccgtg aggcaccgct ttttgctgcc gtcaacacac cagaaaaaca gccggatcat
     2041 ctgttccgct cgctgggttt taatcgtacc tgggaggaat ggcagcgcga ggaagatgca
     2101 cgaacacaca ccaccgagag gagacatgat cgcggttggt cacagtgaat gtgaacaata
     2161 ttttgttttg tttaacatcg tgttatgttc gtcgatgttc ttcgatgttc atcgacaggg
     2221 atgaatgcaa gaagcacact cacataacgc aagcatagtt ttgtttttcc gcccccaaaa
     2281 attggggggt cttttttcgc tgcatcagag cgtttttgac gcaatttttc acttcaatag
     2341 taccttcgca ctactaacac aaaaaaaacg cagcagggag cgttttaggt gccttaaaat
     2401 cgattttaga tcgtcatctt gatctgtttg tcttccttga agcgaaaatg cagggctaca
     2461 accgtgcgcc cctttttgat cgtctcaaca gttacaacca gatcgctttt ttcgttcagt
     2521 tcggcgatgg ctggcttgat tatcatctta ttcaagtctt tgaattgttg atatttatct
     2581 tcaacggcaa gcatggttcg gaaatcatcg atagctatcg ttctgtcacc ggtgctgcgg
     2641 aactgctgga gcagctcgta aatgcggatg ctgtaggtgc tggaaaggct ggagacgttc
     2701 ttcacgacta cccgcgtaaa ctgccccttg agctgtgtca gatacggcat gatggcatcg
     2761 gagaaggtga tatctacttt cgcctcacct ttgaaatact gcgcccggta ctgcacccag
     2821 cggaactctt ctcgtttttc ctcgttcttg atgattactg acctgtccca gaggcgatct
     2881 atcgcttcct tgagcctagc ttcagcgtgc tgccgtccca tgtcaggaaa ggcatcatga
     2941 aactctgcag ccgtgatggt catggttttt tgttcatccg gcgaagggga atcttctccg
     3001 gattttaggc ggctgataca gaccagcagg aagcgctgtt cctgcaaagt gagcttgtag
     3061 cttgcctcga taagggcgtt tgatttgtaa gctatcagat ctgacatttc gcttgctcgt
     3121 tgctattggt ggcgtttttt tactgtacgc cacttatcat atgggtggaa gttttttttt
     3181 tgcaaccccc tttttctgtg gattacaccc ccaaaagctc cacctttcac ccccaaaagc
     3241 tccacctttc acccccaaaa gctccacctt tcacccccaa aagctccact tatcttgcca
     3301 gaacatcttt aaaatcatgg tgttacaaga cctaaaaagg ttttaaaaaa aaagatctaa
     3361 aaataagatc ttaaaaactt aacggcgagc ctgtggataa cttggggtgc tgaaaacaaa
     3421 aaaccaataa aaacaatgcg ttgcaataaa gcagaattgc aagtttcgaa tacaccccct
     3481 ccaaccctgt ggaaacccag tattcatgcg ggttcagcgc atatcacctg ccgaaaaacc
     3541 gtgcgtatgt gctcaacctg gcgactgatt cacttccgct tcctcgccca ctcgctcgct
     3601 aacgctcggt cgctggggct gcggcgagcg gacgatacaa tcactgttct ggcagcgcct
     3661 ccagctcgtt aatcagcggc agtatgcgcg tcacatcagc ctgtcgtgtc acctctgcct
     3721 tcaggaactg gagtaaccag gcacgcaact gcacctcctc cggctttctg acctttgcca
     3781 gcaatgcagc acccacaaca accttctgcg ctgtgtccag gctccggctc ttcgccttca
     3841 ggcgctgtaa tctcgcctca gcatcagcaa tcttctgttc gagcgttctg ctcatgatgt
     3901 aactccgtgc gcgatgaaaa atcacatttt agcgcgtcac tggtagttta aaaactgagc
     3961 tggcataatg cacggcaaat cacgaagtgc gcacttatac aatctccact ccgtttcgat
     4021 tgtgtgcgcc ctgcggggct gaaagaaaac tacaaaaagg cattacggca gaa
//
