LOCUS       CP093106                4448 bp    DNA     circular BCT 06-MAY-2022
DEFINITION  Salmonella enterica strain PNUSAS021403 plasmid pPNUSAS021403_3,
            complete sequence.
ACCESSION   CP093106
VERSION     CP093106.1
DBLINK      BioProject: PRJNA230403
            BioSample: SAMN07521433
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4448)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Twenty-one complete Salmonella enterica serotype Hadar genomes
            collected from patients in the United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4448)
  AUTHORS   Tarr,C.L., Trees,E., Katz,L.S., Carleton-Romer,H.A., Stroika,S.,
            Kucerova,Z., Roache,K.F., Sabol,A.L., Besser,J. and Gerner-Smidt,P.
  CONSRTM   PulseNet: The National Subtyping Network for Foodborne Disease
            Surveillance
  TITLE     Direct Submission
  JOURNAL   Submitted (26-JUL-2018) Enteric Diseases Laboratory Branch, Centers
            for Disease Control and Prevention, 1600 Clifton Rd., MS C03,
            Atlanta, GA 30333, USA
REFERENCE   3  (bases 1 to 4448)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAR-2022) EDLB, Centers for Disease Control and
            Prevention, 1600 Clifton Road, Atlanta, GA 30333, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2022
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: PNUSAS021403_consensus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/05/2022 15:41:38
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,696
            CDSs (total)                      :: 4,571
            Genes (coding)                    :: 4,460
            CDSs (with protein)               :: 4,460
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 111
            CDSs (without protein)            :: 111
            Pseudo Genes (ambiguous residues) :: 0 of 111
            Pseudo Genes (frameshifted)       :: 46 of 111
            Pseudo Genes (incomplete)         :: 81 of 111
            Pseudo Genes (internal stop)      :: 23 of 111
            Pseudo Genes (multiple problems)  :: 35 of 111
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..4448
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="PNUSAS021403"
                     /db_xref="taxon:28901"
                     /plasmid="pPNUSAS021403_3"
                     /geo_loc_name="USA"
                     /collection_date="2017-07-31"
     gene            complement(408..776)
                     /locus_tag="CKA18_23415"
     CDS             complement(408..776)
                     /locus_tag="CKA18_23415"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UPY21291.1"
                     /translation="MALLISLVVVAGLYYQFWYKPHRAPILRIWGIAPDGQEFRLLLTE
                     HGEKEAVLLFGKKSFVAVPDTQNLYGGCYYLYLEDAHKNELLIELNESDLYPGGAIELQ
                     HNGGRKIHCEILKVRWSR"
                     /name="hypothetical protein"
     gene            936..1169
                     /locus_tag="CKA18_23420"
     CDS             936..1169
                     /locus_tag="CKA18_23420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008461706.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="UPY21292.1"
                     /translation="MNKKTLLAAMMVALVTFAAAGCSSNQEIKTTDGRTIVTDGKPKVD
                     SDTGLVSYKDAHTGRTEQINRDKITNMSELDN"
                     /name="YgdI/YgdR family lipoprotein"
     gene            1191..1418
                     /locus_tag="CKA18_23425"
     CDS             1191..1418
                     /locus_tag="CKA18_23425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="UPY21293.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPTES
                     DSGLLGYKDANGVKQQINKADVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     gene            complement(2110..2325)
                     /locus_tag="CKA18_23430"
     CDS             complement(2110..2325)
                     /locus_tag="CKA18_23430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="UPY21294.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2332..2823)
                     /locus_tag="CKA18_23435"
     CDS             complement(2332..2823)
                     /locus_tag="CKA18_23435"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="UPY21290.1"
                     /translation="MSSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRAWLTILMVSALLIATSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            complement(2858..3292)
                     /locus_tag="CKA18_23440"
                     /pseudo=""
     CDS             complement(2858..3292)
                     /locus_tag="CKA18_23440"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(3501..3824)
                     /locus_tag="CKA18_23445"
     CDS             complement(3501..3824)
                     /locus_tag="CKA18_23445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="UPY21295.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLEQLRHAVLEKGTD
                     DDH"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(3931..4009)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.75"
                     /coverage="100.0"
                     /evalue="2.7400000000000003e-32"
     Typing          14..171
                     /name="rep_cluster_2406"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.79e-77"
     Typing          4085..4448
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.45"
                     /coverage="93.0"
                     /evalue="1.09e-94"
     Typing          complement(2019..3511)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.8"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3508..3824)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="9.77e-61"
ORIGIN
        1 aggattgact gtatgcacga accccccgtt cagtccgact gctgcgcctt atccggtaac
       61 tatcgtcttg agtccaaccc ggaaagacac gaaaaatcgc tactggcagc agccattagt
      121 aactggaggt atacgagaga caaattaaga ggtcttgaag tatgggcctg agagaggcta
      181 cactgaaaga acatttttgg tttctgcggt ctcgtatacc cagttacctg gttaagcagt
      241 tccccaactg acttaacctt cgatcaaacc acctccccag gtggtttttt cgttttcaga
      301 gcaagagatt acgactgtaa cgacaggatc acaagaagat catttactca gagagactaa
      361 ctaccactat gtttgcctat caacatactt aggaaacatt acttgagtta acgactccac
      421 cttactttta gtatctcgca atgaatcttc cgaccgccgt tgtgttgaag ttctattgcg
      481 ccaccggggt ataaatcact ttcgtttaac tcaattaaaa gctcgttctt gtgagcatcc
      541 tctaaataaa ggtaataaca cccaccataa aggttctgcg tatctggcac ggcaacaaaa
      601 gatttctttc cgaacagtaa aacagcctct ttttctccat gctctgttag caataatcga
      661 aattcttgtc catcaggcgc gatcccccat atacgcaaga tcggcgctct atgtggctta
      721 taccaaaatt gatagtaaag acctgccact acaaccagtg aaattaataa ggccatttca
      781 atcctcaaaa acaagcaaca ttccaaaatc gtttttcatt catttttact gctgggcatg
      841 atgcccacct tcaatcctct tttcgcatga aaaaacgacc tatacttaga tggttagtga
      901 ccatatccac tttaccttta agcagggaac ctattatgaa taaaaaaacg ctgttggcgg
      961 ccatgatggt cgcgttggtg acctttgccg ctgctggatg ttcttcaaac caagaaataa
     1021 aaaccacaga tggtcgcact atcgttacag acggcaaacc caaagttgac agtgatacgg
     1081 ggttagtatc ctacaaagat gcccatacag gccgaaccga acagatcaac cgtgacaaaa
     1141 ttaccaacat gagtgaacta gacaactgat acggataaaa ggagctggct ttgaaaaaga
     1201 tttttgtttc agtgttcgca gcggcagttg cgctttcagc cctaaccggc tgcacgcgca
     1261 caagctatgc catccacacc aacgacgggc gtacaattgt cagcgacggc aagcctacag
     1321 aatcagactc aggcctgctg ggctataaag acgcaaatgg tgtcaaacag cagatcaata
     1381 aagccgacgt taaagaagtc tctgaaattc cgcattgagg catcgctctc tccgaaaagg
     1441 gccgctaatg cggccctttt ctttatctgc cccaacaaca ggcaaaaaaa gcccccgctg
     1501 ggggccaaat acctgcagtg gctggatagt actgcattcc tgatgaagga gacgaataag
     1561 tatgggccgg atttttgcgt ctgcaggctc ggtcgccaca atttttccgt acccgccagg
     1621 catcatgctt ttaccataac atccgttgtc tgcaccgccg gatcggcact gacggcgcag
     1681 acggcacctg gcacccgaaa acccggctta agcaacgcta catcctccgt taagccggga
     1741 gataattttt acccgactgc atagccatgc agccaggtga atgacggcag gattcagccc
     1801 aaaaacagcg tgaaggcccc gaaaaccggc aaatgctttt ccagccactc ccacagttct
     1861 gccgccagat gcaggcagtt aagtacagct tcaataacat taagcagttt cataattccc
     1921 cctggtatag gccgtgatct ttgcatcacg acgtatttag cggggaattt cgcagccctt
     1981 cttcttgggg tttatcacgg gccggcatcc gtcagcccag cgtcggtcct ttgtaggttt
     2041 tctgcggctg gcgctccagc tccagtgttt tctgatactc attctccccc tgccggaact
     2101 cggtggcatt cagttcccgg acaagcggcg cagctgctcg cttaaactca gcacctgcgt
     2161 gctcaagtcc gacacgcgct cgttcagcac cgcgttctcc cgttgcataa gcccagacat
     2221 cttctgccat tccgcgaagg cgctctccca ttcgtccagc ctttgcgagt agtcctgatg
     2281 tagctgctct aatgcggtca gcaactgctt ttccagctct gtcattttcc gctactcctg
     2341 tttcaggcgg atccaggtcg tcccgtcgta ggggatggct tcggcttgca tccccggcgg
     2401 caggataagg aacctccggc cgtcgctgct ctcctgatag cgcactcccc acgtccgggc
     2461 agtcattttc gccagggtat cttcctgctg acgaagatgt gtgtaattgt cggttatctg
     2521 ctgcccctgc caccacagaa tgctcccgct cgtggcgatc agcagcgctg acaccatcag
     2581 gatggtgagc catgccctcc cggctgtcag cagcacgctc cgccggtttt tctccatcgc
     2641 ctcgctcata ctctgttcgt gggcgctgat ggcgtcgctg attctcctcg cgcttgcgct
     2701 cagttccgct ctgacagact gctcgtgctc gctgaatgcg gctttcagca tctcgccggt
     2761 actctgctgc tgcgctttcg atttctgctc caagtccttc gccagcgtta aaagactgct
     2821 catagatggc tcccttcagt cggatgtttc gccccccgtc cgggtcggca atgctgatgc
     2881 tgcttttcgt gctgcgcacc acctcaaaac ctgcgctttc cagcgcctca gtgacgtcct
     2941 gacgggtttt cagctccccg gatgaggcaa gggcaagcag gccgcgcgta atcgcctggg
     3001 cagcttcctg cttcgcttcc ggcagcgcgg acggcgtgac cagcgcccgc cggttttccg
     3061 gcgcgttcgg gtcgtgcagc cccagccggc cgttgaccac cgtctgccag gcatcgatgc
     3121 gcggccggtc ggcgcggtcg tagtacggct ggagccgcct gccggtcagc agctcggtat
     3181 tggggatcag aaagttcagc tccagacgcc ccttgtccgc gtgctccacc cacagaatgc
     3241 tgtactgatc tttatcgagg ccgggcatca gaacacgctc gaagctggcc atcagttttt
     3301 cccgctggcc gggaggcaga tctgcctccg caaacgacag tacgccggag gtgtatttct
     3361 tcacgtaagg cgacacatca atcagctccc ggacttcttc cggcttgccc tgcaggacgg
     3421 tggcgccttc acgctgccgg tctttaccca gcaaatagtc caccggcccg gcgccaccgc
     3481 cgcgaccgcg cggatgaaat ttaatgatca tcgtccgttc ctttctcaag aacggcgtgc
     3541 cgcagctgct caaggccggc atcgattgcc atcagcgccg ccacaatctg caccctgtca
     3601 tggccggtac cgccgccggc gttaacgcgg cgggctatct ggttcaggtt gttgcccatg
     3661 ccggcaagct ggcgcagcag cgccggcgag atcgagggta gctttccggt acgcgcaggc
     3721 ttttcatcaa gacaggtctg ccgcatccac gccgccagct gcctgccgtc acagcgttcg
     3781 agcagccgcc ggtgctcgtc ctccgtcacc cacatggtga gcatcttgtt ccgtttctct
     3841 gacaaaccgg tctcctgata acgccgggac gggcgggaaa gcctttcccg gtcggcgcgg
     3901 ggttggacaa gccgcaggcg cgtcaggctt ttggcgggtt tcggggcgca gccctgaacc
     3961 agtcacgtag cgctagcgga gtgtatactg gcttactatg gtggcacgac gggaatcggg
     4021 atgaaatagt cagtcataaa aactgtgaga tgaggctcag gtgcgtaagg ggctgatgcc
     4081 tgtcccggtg gatattccgc ttcctcgctc actgactcgc tacgctcggt cgttcggctg
     4141 cggcgagcgg tacggactca cggataaaga cgtggggggg aaatacgtga atgcaggagg
     4201 ggaaaaaagg atgcggcgct gccggttttc cataggctcc gcccccctga caagcatcac
     4261 agaatctgac gctcaaatca gtggtggcga aacccgatgc ggcttaaaga taccaggcgt
     4321 ttccccctga tggctccctc gtgctccccc gcattcctgc ctttcggttt accggtgtca
     4381 ttccgctgtt atggccgcgg tttctcattc cacgcctgac actcagttcc gcgaaggcag
     4441 ttcgctcc
//
