LOCUS       NZ_CP148835             4903 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Infantis strain
            Z1323CSL0006 plasmid pZ1323CSL0006-4, complete sequence.
ACCESSION   NZ_CP148835
VERSION     NZ_CP148835.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40424060
            Assembly: GCF_037780985.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Infantis
  ORGANISM  Salmonella enterica subsp. enterica serovar Infantis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4903)
  AUTHORS   Chae,J.-C., Oh,J.Y., Jeong,J.H. and Kwak,S.M.
  TITLE     Complete genome sequence of Salmonella enterica subsp. enterica
            serovar Infantis isolated from humans, companion and industrial
            animals
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4903)
  AUTHORS   Chae,J.-C., Oh,J.Y., Jeong,J.H. and Kwak,S.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-MAR-2024) Division of biotechnology, Jeonbuk National
            University, kobongro, Iksan 54596, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 146X
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037780985.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 20:59:51
            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)                     :: 4,939
            CDSs (total)                      :: 4,820
            Genes (coding)                    :: 4,643
            CDSs (with protein)               :: 4,643
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 177
            CDSs (without protein)            :: 177
            Pseudo Genes (ambiguous residues) :: 0 of 177
            Pseudo Genes (frameshifted)       :: 79 of 177
            Pseudo Genes (incomplete)         :: 127 of 177
            Pseudo Genes (internal stop)      :: 42 of 177
            Pseudo Genes (multiple problems)  :: 62 of 177
            Pseudo Genes (short protein)      :: 1 of 177
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP148835.1.
            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..4903
                     /organism="Salmonella enterica subsp. enterica serovar
                     Infantis"
                     /mol_type="genomic DNA"
                     /strain="Z1323CSL0006"
                     /serovar="Infantis"
                     /host="Chicken"
                     /sub_species="enterica"
                     /db_xref="taxon:595"
                     /plasmid="pZ1323CSL0006-4"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-02-23"
     gene            complement(<6..503)
                     /locus_tag="WI240_RS24650"
                     /old_locus_tag="WI240_24650"
                     /pseudo=""
     CDS             complement(<6..503)
                     /locus_tag="WI240_RS24650"
                     /old_locus_tag="WI240_24650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067073.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /name="replication protein"
     gene            complement(496..642)
                     /locus_tag="WI240_RS24655"
                     /old_locus_tag="WI240_24655"
     CDS             complement(496..642)
                     /locus_tag="WI240_RS24655"
                     /old_locus_tag="WI240_24655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309215.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF2740 family protein"
                     /protein_id="WP_001125981.1"
                     /translation="MPKQLSPDQDKLHKNILRDRFLSSFKQPGRFRAELEKVKLILKRK
                     GHE"
                     /name="DUF2740 family protein"
     gene            complement(675..971)
                     /locus_tag="WI240_RS24660"
                     /old_locus_tag="WI240_24660"
     CDS             complement(675..971)
                     /locus_tag="WI240_RS24660"
                     /old_locus_tag="WI240_24660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309214.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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="CII family transcriptional regulator"
                     /protein_id="WP_000189606.1"
                     /translation="MTQASYSKPTQREIDRAETDLLINLSTLTQRGLAKMIGCHESKIS
                     RTDWRFIASVLCAFGMASDISPISRAFKYALDEITKKKSPAATEDFKQIDMQF"
                     /name="CII family transcriptional regulator"
     gene            complement(1122..1355)
                     /locus_tag="WI240_RS24665"
                     /old_locus_tag="WI240_24665"
     CDS             complement(1122..1355)
                     /locus_tag="WI240_RS24665"
                     /old_locus_tag="WI240_24665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102594.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001058406.1"
                     /translation="MNNELLRWRKDATSAEWVRLAELANTTVGYLDQIAYGYRRASPEK
                     ALAIEVASKVFKKHMPVLKESLVFATTRNSAA"
                     /name="hypothetical protein"
     gene            1396..2148
                     /locus_tag="WI240_RS24670"
                     /old_locus_tag="WI240_24670"
     CDS             1396..2148
                     /locus_tag="WI240_RS24670"
                     /old_locus_tag="WI240_24670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015705908.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LexA family transcriptional regulator"
                     /protein_id="WP_000935320.1"
                     /translation="MLNTKQASFSNLHIYRIAKECETQGMENKEIRKANLEALYEERKR
                     STGMTKAQFAELIDTSPAALSQLLGENPNRNIGDKLARKIENALGLSFGWLDVLHSKEN
                     TGNVAFRGMNDTKGSYPVISWISAGQWMEAVEPYHRRSIDRWYDTTVVCSEDSFWLDVK
                     GDSMTSPVGLSIPEGAAILVDPEVEPRNGKLVVAKLDGDNEATFKKLVIDAGRRFLKPL
                     NPQYPMQEINGNCRIIGVVVDAKILNLP"
                     /name="LexA family transcriptional regulator"
     gene            2977..3510
                     /locus_tag="WI240_RS24675"
                     /old_locus_tag="WI240_24675"
     CDS             2977..3510
                     /locus_tag="WI240_RS24675"
                     /old_locus_tag="WI240_24675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001535909.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HNH endonuclease"
                     /protein_id="WP_058649971.1"
                     /translation="MDLTQVSVREILHYNPVSGDFYWKPRAKHLFADNRAALTWNKKYP
                     GKKAGSPDNKGYLRINIGGKKFKSHRLAWLYVHGYWPDVIDHINGVKDDNRISNLRSVS
                     FKENMKNMPLKSSSSTGVTGVEARKEHGFYVASITVDGKRKYLGSFKLLDDAKQARKEA
                     NALYGFHENHGRSQ"
                     /name="HNH endonuclease"
     gene            <3512..3640
                     /locus_tag="WI240_RS24680"
                     /old_locus_tag="WI240_24680"
                     /pseudo=""
     CDS             <3512..3640
                     /locus_tag="WI240_RS24680"
                     /old_locus_tag="WI240_24680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016063037.1"
                     /note="frameshifted; incomplete; partial in the middle of a
                     contig; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="regulator"
                     /name="regulator"
     gene            3714..4433
                     /locus_tag="WI240_RS24685"
                     /old_locus_tag="WI240_24685"
     CDS             3714..4433
                     /locus_tag="WI240_RS24685"
                     /old_locus_tag="WI240_24685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016023187.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="pentapeptide repeat-containing protein"
                     /protein_id="WP_075322247.1"
                     /translation="MNSADLSKILEEHKVWITSMRESGSRANLRDANLRDANLRGANLR
                     DANLRGADLRGANLRDANLRDANLCGANLCGANLRGANLRDADLRDANLRDANLCGANL
                     CGANLRGANLRDADLRDANLCGADLRGANLRDANLRGADLRGANLRDANLPDLTFVILG
                     EKYFISITNGEYVRAGCQNHTVEEWRKYSKQEIAEMDGRKALKFYPRLLDIIDFYIGKG
                     ERPDWLTSKEYADEVTE"
                     /name="pentapeptide repeat-containing protein"
     gene            4467..4745
                     /locus_tag="WI240_RS24690"
                     /old_locus_tag="WI240_24690"
     CDS             4467..4745
                     /locus_tag="WI240_RS24690"
                     /old_locus_tag="WI240_24690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001748038.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001748038.1"
                     /translation="MKKFKGTPGPWSGKDVRICRQDRAGLQLGFIMTHDENRVAECEAN
                     AHLIAAAPELLEALQLLLNSWSNGSSKDISNAERKARSAISKALGEE"
                     /name="hypothetical protein"
     gene            4745..4870
                     /locus_tag="WI240_RS24695"
                     /old_locus_tag="WI240_24695"
     CDS             4745..4870
                     /locus_tag="WI240_RS24695"
                     /old_locus_tag="WI240_24695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000405108.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000405108.1"
                     /translation="MEINKEQASEIIKLIEQALLDGFDDEILVSLHESLTKFVSE"
                     /name="hypothetical protein"
ORIGIN
        1 ttgccgccac cgttaggggg taagggggta tttgtattta ttgtcttttg tatattgtct
       61 tttgtgtttg actgattcgg taaattggtt tttaccgatt tggtgaaggt tagttttacc
      121 gatctggtaa atgttttacc gaatccgtta accttcgtct tccactcgga aatattttta
      181 ttcataccaa cctgacgccc cacctgagtg agaaccccca ttctgataag ctcgtttttg
      241 gcggtagaac atttggttgg cgccatgcca gtgagttcag cgaactgttc atttccgatc
      301 caatctattt ttttgttata accgtatgtc ttgcgccaca cagccataac aatcagtagc
      361 tgatgttgag taagcccaga aagcatgaca gcttccagca gtgtatttgc agtccgggtg
      421 tagccatcgt cgagttctgc cacgcgatgc tccacaacct ccagatgagg ttttatcggt
      481 gtaactgttg caagattact catgaccttt cctcttcagt attagcttca ctttctccaa
      541 ctcagcccga aatcgaccag gctgtttgaa gctggataag aaccgatcac gtagtatgtt
      601 tttgtgtaat ttgtcctggt caggactgag ttgttttggc ataattactc ctgtggattg
      661 atccagtaat tccctcagaa ttgcatatca atttgcttaa aatcctcggt ggcagccggg
      721 gattttttct ttgtgatttc atcaagcgca tacttaaaag ccctgctaat cggactgatg
      781 tctgatgcca ttccgaaagc acacaagacc gaagcaataa atctccagtc cgttctgctt
      841 atcttagatt catgacagcc aatcatcttt gccagaccgc gctgggtaag cgttgacagg
      901 ttgatgagta aatcagtttc agcgcgatca atttctcgct gtgttggctt gctgtaactt
      961 gcttgtgtca tttcttacta tctccatagg taaataattt gggtttttat cgtgcaccat
     1021 tgacagtcat ccttgaccac gccgggcacc cgaccatata ccgggccgtt cggttatcaa
     1081 aagttgctca ctggttactt gccgcctgaa ggcgacaggg ttcatgctgc gctgttacgg
     1141 gtggtcgcaa agaccaggct ttctttcagt actggcatgt gctttttgaa aaccttgctt
     1201 gccacttcga tcgccagtgc cttctctgga gaagccctgc ggtatccgta agcaatctgg
     1261 tctaaatagc caaccgttgt gttggctagt tctgccaacc gcacccactc agcggaagtc
     1321 gcatcctttc gccagcggag taattcgttg ttcataggtt gctccgggtt aacgttacaa
     1381 ttggagttta gcgttatgct aaatactaag caagcatcat ttagcaattt gcacatttat
     1441 cgcattgcta aagaatgcga gactcaggga atggaaaaca aagaaatcag aaaagccaac
     1501 ctagaggctt tgtacgaaga gcggaaacgt tcgactggaa tgactaaggc acagttcgct
     1561 gaactcatag acaccagtcc tgccgccctg agtcagcttc taggagaaaa cccgaatcgc
     1621 aacatcgggg ataagctggc tagaaaaatt gaaaatgctt tgggtctgtc attcggttgg
     1681 ctggatgttt tgcactccaa agaaaacacg ggtaacgttg catttcgagg gatgaacgac
     1741 acgaaaggaa gttatcctgt aatcagttgg ataagcgcgg ggcaatggat ggaagctgta
     1801 gaaccttatc atcgcagatc aatagatcgc tggtatgaca ccactgtggt gtgctcagag
     1861 gattcattct ggctggatgt taagggggac tctatgacat cccctgttgg cctgagtatt
     1921 ccagagggtg cggcaattct tgttgatccg gaagtcgagc cacggaacgg aaagcttgtt
     1981 gtcgctaagc ttgacggaga caatgaggcc actttcaaga agcttgtcat agacgctggc
     2041 cgccgattcc ttaaaccgct taacccgcag tatcccatgc aagaaataaa tggtaattgc
     2101 cggatcattg gcgttgtagt agacgcgaag attctcaact tgccgtaaag actcacgata
     2161 ttccccctaa gcccgccaat gagcgggctt ttttttgctt ttcgttttct acaccacctc
     2221 aatgctaaaa attaattcct ttattaatca aaaagctaaa cttcacgcgc cagtaattta
     2281 gcattttgct attgccaatg atttagcatc acgctaaatt taacccatcg agacagcaca
     2341 tcgtttcggt cagtcgaacg gcgcgacagt aaaccatgcg tcggccccat ggcgagccaa
     2401 tggacggttc caatatgcgg gattgcttaa cctgatgttt tctttttaga gagatcaaca
     2461 tgttaagtga ttgcatagag cataaccaaa aacaaaatta cggtaccact tcaactcgaa
     2521 tcaacggtaa gacagtggcg ataaggcttc acaggaaagc ctactgcgaa tcagtcggtg
     2581 tctctattga gagcattaaa ggacgtgtag tgctgcatat gtgtgataac ccgcgatgca
     2641 tcaacccaga gcatttggtg cttggtactc agttggaaaa cgtaagggat atggaaatta
     2701 aagggagagg aaatcacgtc tctggagaga gaaacggttc cgcgaaactt accgcagaag
     2761 atgttcttga aatacgaagc tccacgctga gtaacaggaa aatagcagcc atctatggac
     2821 tgtctgattc gtacattagt tcaattaggc ttcgcaagaa gtggaaacac atatagcccg
     2881 cctaggcggg ttcaggatga acggcaatgc tgctcactac aaaagaacat ttccataacc
     2941 ggagggttat tgaagtgttt ttgttaggag gtttaagtgg atcttactca agtgtctgta
     3001 agggagattc ttcattacaa tcctgtgagt ggtgactttt attggaagcc gagagcaaag
     3061 catttgtttg cggataacag agctgccttg acgtggaaca agaagtatcc aggtaaaaag
     3121 gctggatcac ctgacaacaa gggttatctg agaataaata ttggaggtaa aaaatttaag
     3181 tctcacagac ttgcatggct ttacgtgcat ggctactggc ctgatgtgat tgatcacata
     3241 aacggcgtta aggatgacaa cagaatctcc aatttaagaa gcgtttcttt caaagagaat
     3301 atgaaaaaca tgcctttaaa atcatcttca tcaactggag ttacaggtgt tgaagcaaga
     3361 aaagagcatg ggttttatgt tgcatcgata actgtggatg gaaaacgaaa atacctaggc
     3421 tcattcaaac ttttagatga tgccaaacaa gcaaggaaag aagccaatgc actatatggc
     3481 tttcatgaaa atcatggacg gagccagtaa acgtgtttca agagccattt cgcttgccgg
     3541 aacgcgtcag aaggaagttg aaggaggatc tgtacttctt ccagacgtag cactttacgc
     3601 ggctggtcat cgtaagtgtg ggcaaattac cgctagataa ttattcaggc agcaatcatc
     3661 taatcaggtc gcaatgcggc cttttttatt gccaaaattt aaggaataac aacatgaatt
     3721 cagcagattt atcgaagatt cttgaagagc acaaggtgtg gattacctca atgcgtgaga
     3781 gcggatcgag agccaacctg cgcgatgcca acctgcgcga tgccaacctg cgcggtgcca
     3841 acctgcgcga tgccaacctg cgcggtgccg acctgcgcgg tgccaacctg cgcgatgcca
     3901 acctgcgcga tgccaacctg tgcggtgcca acctgtgcgg tgccaacctg cgcggtgcca
     3961 acctgcgcga tgccgacctg cgcgatgcca acctgcgcga tgccaacctg tgcggtgcca
     4021 acctgtgcgg tgccaacctg cgcggtgcca acctgcgcga tgccgacctg cgcgatgcca
     4081 acctgtgcgg tgccgacctg cgcggtgcca acctgcgcga tgccaacctg cgcggtgccg
     4141 acctgcgcgg tgccaacctg cgcgatgcca acctgcctga tctaactttc gtaatcctgg
     4201 gtgagaaata cttcataagt ataacgaacg gtgaatatgt acgagcagga tgccagaacc
     4261 acacagttga ggaatggaga aaatatagta agcaggaaat tgctgagatg gatggtcgta
     4321 aagctcttaa attttatcca cgtcttctgg acattatcga cttctatatt ggtaaaggtg
     4381 aacgcccgga ttggttaaca agtaaagaat atgcagatga agtaactgag taagcgtatt
     4441 tttggcagcg agacacagag gtgaatatga aaaagtttaa aggtacgcca ggtccttgga
     4501 gcggaaagga tgtacgcatt tgcaggcaag atagagctgg gttgcagctt ggttttatca
     4561 tgacccatga cgaaaatcgc gtagctgaat gtgaggccaa tgcacacttg atagcagcag
     4621 ctccggagtt attggaagcg ctacaattgc ttctcaactc ctggtcaaat ggtagttcta
     4681 aagatatttc aaacgctgag agaaaagctc gctcagccat cagcaaggct cttggggagg
     4741 agtgatggaa ataaataaag agcaagcatc agaaattatc aaacttatcg aacaagcatt
     4801 acttgatggg tttgatgatg aaattttggt ttcgctacac gaaagtctta ccaaatttgt
     4861 cagcgaataa gcacctaatg accattttaa tagtggtcat tgt
//
