LOCUS       NZ_OX442406             5087 bp    DNA     circular CON 15-NOV-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Agona isolate pure
            strain plasmid 4, complete sequence.
ACCESSION   NZ_OX442406
VERSION     NZ_OX442406.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA112702325
            Assembly: GCF_949361515.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Agona
  ORGANISM  Salmonella enterica subsp. enterica serovar Agona
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1
  AUTHORS   Hendriksen,R., Thornval REBEKKA,N., S?rensen HOLM,L. and
            Lacy-Roberts,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-MAR-2023) DTU National Food Institute, Global Capacity
            Building Group, Bygning 202 DK-2800 Kgs Lyngby, Denmark
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/14/2023 14:44:10
            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)                     :: 5,039
            CDSs (total)                      :: 4,920
            Genes (coding)                    :: 4,789
            CDSs (with protein)               :: 4,789
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 131
            CDSs (without protein)            :: 131
            Pseudo Genes (ambiguous residues) :: 0 of 131
            Pseudo Genes (frameshifted)       :: 54 of 131
            Pseudo Genes (incomplete)         :: 92 of 131
            Pseudo Genes (internal stop)      :: 15 of 131
            Pseudo Genes (multiple problems)  :: 28 of 131
            Pseudo Genes (short protein)      :: 1 of 131
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OX442406.1.
            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..5087
                     /organism="Salmonella enterica subsp. enterica serovar
                     Agona"
                     /mol_type="genomic DNA"
                     /serovar="Agona"
                     /isolate="pure strain"
                     /sub_species="enterica"
                     /db_xref="taxon:58095"
                     /plasmid="4"
     gene            complement(join(5084..5087,1..218))
                     /locus_tag="P9C28_RS25160"
     CDS             complement(join(5084..5087,1..218))
                     /locus_tag="P9C28_RS25160"
                     /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="WP_281040173.1"
                     /translation="MIVKIHSRGAGSGSGPVDYLLGKDRQREQASVLRGNPEYVRELID
                     GCDFSRAYTSGVLSFQEPDIADAEKSRL"
                     /name="hypothetical protein"
     gene            complement(208..534)
                     /gene="mobC"
                     /locus_tag="P9C28_RS25165"
     CDS             complement(208..534)
                     /gene="mobC"
                     /locus_tag="P9C28_RS25165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_006674374.1"
                     /translation="MEKRTKEIKIRLTETEHQLLLERCDRTHLAEWLRHLGLGEHTSRK
                     RRVPSVAPELLRQVSGIGNNLNQIARRLNQSDSLTPSERVSLLAVLNSLDRQLGDLLEQ
                     NRDR"
                     /name="mobC"
     gene            complement(775..1920)
                     /locus_tag="P9C28_RS25170"
     CDS             complement(775..1920)
                     /locus_tag="P9C28_RS25170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674372.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Kiwa anti-phage protein KwaB-like
                     domain-containing protein"
                     /protein_id="WP_006674372.1"
                     /translation="MAEEKLDLSELHHDAQKASELSSYYSHFDTKVEDFDLHVYFNFRH
                     KIKGGDGKYRYEYRVAKIDDTTVLKESIKDNVITKTLNDLSSGGVAVSDIKQLSDRAST
                     ISFLEDAKSYKDEQMSFLTGIIFDKGFGGDGDIPVVNFEKFDKISKVDSIVFVLRKGDK
                     CITIYKKQYPIQNLTKQKNHYFSYSKDTLSKIDADMISIDGKASIVFVKGTAYIYDQDV
                     FEKFFGYKKWIKKVAGEFVSEMKQKFSSIVDFGKVTDRLEKESADADAFSRKLARIYNN
                     KDLRASFNTVTPEKISDFLVENEYFARLLKYKSAEEPLEVSTHDQQEAFILIVSEGVLR
                     SLITGFDYLSPAAKRKIATGQTAQKPSSVVTRIPSSASDAA"
                     /name="Kiwa anti-phage protein KwaB-like domain-containing
                     protein"
     gene            complement(1913..2569)
                     /gene="kwaA"
                     /locus_tag="P9C28_RS25175"
     CDS             complement(1913..2569)
                     /gene="kwaA"
                     /locus_tag="P9C28_RS25175"
                     /inference="COORDINATES: protein motif:HMM:NF041622.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="anti-phage protein KwaA"
                     /protein_id="WP_024140105.1"
                     /translation="MKIKMYVLSLFFLFIPIIFYFSGIDDVWNVFTKANGFCDGVSNRI
                     VCITGNMGNQLSLSVSRLCVCIFLVFLCGYTYWWYKRQLSFLDRGITSAEVVVVGCEKE
                     STEYLSFLSTYIMPLVFTDLTKPSNVFNFIFILVIVGFLHIKTRRIHSNPTLSLFGVSA
                     YKIDYIIRVDGQDSDITKGLIVLSKDEISVKSVIRIIKKEDYITFAKYIRNDSNG"
                     /name="kwaA"
     gene            complement(2559..3455)
                     /locus_tag="P9C28_RS25180"
     CDS             complement(2559..3455)
                     /locus_tag="P9C28_RS25180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674370.1"
                     /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_006674370.1"
                     /translation="MSNAALELFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPENGHAHLLYALKTSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHRHWKIAVWQPELYTLDWLADFLDLNAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYGQWMLACVERATAYNMQFSAPLD
                     EKEVISIAKSISKWTYSKFTQQSFDEYVKKTHSAECQSIRGRKSSGGGRPKIRSEEWVS
                     LGISRATWYRKHYKNEN"
                     /name="replication initiation protein"
     gene            complement(3634..3870)
                     /locus_tag="P9C28_RS25185"
     CDS             complement(3634..3870)
                     /locus_tag="P9C28_RS25185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010566328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023135788.1"
                     /translation="MAKGAQAISKEINELMRKNGNECITLKWEQFYEICERERLAEVVM
                     ERVSESLKKNDLHIIYGNNVIIVRDFCWKPVSL"
                     /name="hypothetical protein"
     gene            complement(4032..4268)
                     /locus_tag="P9C28_RS25190"
     CDS             complement(4032..4268)
                     /locus_tag="P9C28_RS25190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674368.1"
                     /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="WP_057515709.1"
                     /translation="MTEMEKQLLSALESLQTSYEQQQQAWQASYSSLQHMFETTSQALE
                     RSDRVCQHLSSQVNSLRDQVENLSCNVSRLMRS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4329..4814)
                     /locus_tag="P9C28_RS25195"
     CDS             complement(4329..4814)
                     /locus_tag="P9C28_RS25195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674366.1"
                     /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="WP_006674366.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDIEQSVKREFGRLEMSIGAELQSSS
                     QSISNAIREQNGRLTGMIRASVSTAMAWIFTSFALLIGILGGIIWFQGTIITSRLSEMD
                     SYSQQLASLKAKSGAGVTIYSDDSRRNTYLVVLPKQAHGVETYTSQAGNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     Typing          209..401
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.959"
                     /coverage="100.0"
                     /evalue="1.86e-38"
     Typing          complement(3971..5085)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.462"
                     /coverage="87.0"
                     /evalue="0.0"
ORIGIN
        1 aggcgcgatt tctcggcatc cgcaatgtcc ggctcctgga atgacagcac accggaagtg
       61 taggcgcggg aaaagtcgca gccgtcgata agctcgcgca catattcagg gttgccgcgc
      121 agcacactgg cctgttcgcg ttgccggtct tttcccagca gataatccac cggaccactg
      181 cctgagcccg caccgcgcga gtgaatttta acgatcacgg ttctgctcca gtaaatcgcc
      241 aagctgccgg tcgagactgt tcagcacggc aagcagcgag acacgttcag agggcgtaag
      301 ggaatcactc tggttcagac ggcgggcgat ctggttcagg ttgttaccaa tcccgctgac
      361 ctgtcgcagc agttcgggcg ccacactggg cacacggcgc ttgcgtgagg tgtgctcgcc
      421 cagaccaagg tgacgcagcc actcagcaag atgagtccgg tcgcagcgct caagcagtag
      481 ctgatgctcg gtttcggtga gccggatttt gatctctttc gttcgctttt ccataggctc
      541 cgctaagaaa aaattcgcac caccgtgaga atttttcgca gtggatgccg ggggtttcgg
      601 ggggcggcga gccccctgaa ccagtcacag acggcacctc gcagagggga cgctgtgtgt
      661 actggcttat ggtatggtgt agtatgtcag attctgtgct ggctgcaaaa aaaacagccc
      721 tctctaagag agggctgtta tctgatatag gttgttttgt ctcaagctcg ttcgttaggc
      781 ggcgtcagat gcgctggagg gtatcctagt tactacagaa gaaggttttt gcgcggtttg
      841 gcctgtcgca atttttcttt tcgcggcagg gcttaaataa tcaaaaccag taataagcga
      901 gcgaagaacg ccctcagaaa ctattaatat aaatgcttcc tgctgatcat gggttgatac
      961 ttctaaaggt tcttccgctg atttgtactt tagcaatcta gcgaaatact cattttcaac
     1021 taaaaaatca ctgatttttt ctggtgtaac agtattaaag gaagctctta gatctttatt
     1081 gttatatatt cttgccagtt tccttgaaaa ggcatctgca tcagcacttt ctttttcaag
     1141 cctgtcggta acttttccaa agtctactat cgatgaaaat ttttgcttca tttcagaaac
     1201 aaattcgccc gcaacttttt ttatccactt cttgtatccg aaaaatttct caaaaacatc
     1261 ctgatcatag atatatgcag tacctttaac aaaaacaata gaggcttttc catcaattga
     1321 tatcatgtca gcatctattt ttgataacgt atctttgcta tatgagaagt aatgattttt
     1381 ctgtttggtc aggttctgta taggatactg ttttttgtat attgttatac atttatcacc
     1441 tttccttaag acaaaaacaa ttgagtcaac ctttgatatt ttatcaaact tctcaaaatt
     1501 gacgacagga atatccccat cacctccaaa tcccttatca aaaataatac ctgtcaaaaa
     1561 agacatctgt tcatctttgt atgactttgc atcttctaaa aatgatatag tgctagccct
     1621 atcactaagc tgctttatat cagatactgc aactccaccg ctacttagat cattaagggt
     1681 ttttgttatc acgttatctt tgattgattc tttcagaaca gtagtatcat ctatttttgc
     1741 aacccgatat tcgtaacggt actttccatc accgcccttt atcttatgcc taaagttaaa
     1801 atatacatga aggtcaaaat cttctacctt tgtatcgaag tgggagtaat aggatgagag
     1861 ctcagaggcc ttctgcgcgt catgatggag ctcgcttaaa tccagttttt cttcagccat
     1921 ttgaatcgtt ccttatgtat tttgcgaatg taatgtagtc ttcttttttt atgattcgaa
     1981 ttacactttt cacagatatc tcatccttcg acaggacaat caatcctttt gtgatatcag
     2041 aatcctgacc atcaaccctg attatatagt caattttgta agcagaaaca ccaaacaatg
     2101 aaagcgttgg gttgctatga atccttcttg tttttatatg aagaaatccg acaataacta
     2161 gaataaaaat gaaattgaaa acatttgaag gttttgttaa gtctgtaaaa accaggggca
     2221 ttatgtaagt tgacaaaaat gacagatact cagttgactc tttttcgcat ccaacaacaa
     2281 ccacttcggc agaggtaatc cccctatcca aaaatgaaag ctgtctctta taccaccagt
     2341 aagtatagcc acacaaaaag accaaaaaaa tacaaacgca taaccttgac acggatagag
     2401 atagctggtt gcccatatta cctgttatac agacaatacg attactgacg ccatcacaaa
     2461 aaccattagc tttggtaaaa acgttccaga catcatcaat accagaaaaa taaaaaatta
     2521 ttggtataaa caaaaaaaac aaagacaaga catacatctt aattttcatt tttatagtgc
     2581 ttcctatacc acgtagcgcg actaatacct agagagaccc actcctcaga tcttattttt
     2641 ggccgccctc cgccagagct cttgcgccct cttatactct gacattcagc tgagtgtgtt
     2701 ttcttaacat attcatcgaa agattgctgt gtgaatttag aatatgtcca tttagatata
     2761 ctcttcgcta tacttatgac ctccttttca tctaatggtg ctgaaaactg catgttgtaa
     2821 gctgtagctc tttcaacaca agctagcatc cattgtccat actcaggcca gccctgacga
     2881 atagcacgat aagcccattt tcgggttttg tcgaacaagg tgcagttacg gcctaatccg
     2941 tagtcggcaa cgatttcttt atcgttcgca gcgttcaggt caaggaaatc ggccagccag
     3001 tccagtgtgt agagttccgg ctgccacacg gcaattttcc agtgcctgtg gttcggattt
     3061 ttgcagatta accctgaata ccccgcgtca gcctctaatt ttttacgtag cgcgttctcc
     3121 acggcggcag cgtagcgcag cggcttcatt tttccgtccg gcgctgtgcg tatcgaggtt
     3181 tttagcgcgt acagcagatg cgcgtgtccg ttttcggggt tggtgatggt cagtgtgggc
     3241 gcgggagcat tgcggtcact ccagtcaata gcggcaccgg cgcgatcaac atcgaatccc
     3301 agccagaaca tggcatgagg ctgattgaac tggatgtatt tcgccagaat ggcgcgttcc
     3361 ttgccggcaa tgcgtacacc aaagtgcaaa tcgtccgaaa agtacggctt gtgcggcaag
     3421 cgttcgttga atagttcgag tgcggcgtta ctcaaagcgc cctgcgctta tggcgggctg
     3481 ttgtctggca cagttcatgt gctaatatcc tttcaaggtt ttgtacctgg ccctggtagt
     3541 catgctcatc cgccaagata gctcatgatt gccggggctt tgttttttct gccgttaaac
     3601 ttatacctta aaacaacacg ttgtcactaa tcactaaaga gaaacgggtt tccaacagaa
     3661 atctcttacg ataatcacgt tgttaccgta gataatatga aggtcatttt ttttaaggct
     3721 ttctgacact ctttccatga ctacttctgc aagcctttct ctttcacata tctcgtagaa
     3781 ctgctcccac ttcaaggtaa tgcactcatt cccgtttttt ctcattaact cgtttatttc
     3841 tttagaaatt gcttgagcac ccttagccat ttttactttt tacctcaatt aaaaatcgag
     3901 ataaatatac attacataga ccttatatca agttaaaaaa aaccttaaaa acaacttaca
     3961 tgactcttaa attgaaaggc cgtgataacg tgtccgcttt ttttccatct gaatctggtg
     4021 ttcgtgctgc ttcacgagcg cattaaccgg ctgacgttgc agctcaagtt ctcgacctga
     4081 tcgcgcaagc tgttcacctg actgctcaag tgctgacaga ccctgtcgct gcgttccagc
     4141 gcctgcgagg tagtctcgaa catgtgctgc aaactgctgt agctggcctg ccatgcctgc
     4201 tgctgttgct cgtagcttgt ctgtaagctc tctaaggcgc tcagaagctg tttttccatc
     4261 tcggtcatgg ttttggtcgt cctcggtgtt aaaaacgcgc tgaggcgttt cagggcgttc
     4321 tgatggggtt atttcgccgt gtatttcact acagtgtttc cggcctgtga cgtgtaggtt
     4381 tccacaccgt gtgcctgctt cggcagcacc accaggtagg tgttccggcg ggagtcgtcg
     4441 ctgtaaatcg tcacacccgc gccacttttc gctttcaggc tcgccagctg ctggctgtag
     4501 ctgtccattt cgctcaggcg tgaggtgatg atcgtgccct gaaaccagat tatcccgccc
     4561 aggatgccga tcagcagggc gaagctggtg aatatccacg ccatcgccgt tgagacggag
     4621 gctctgatca tgcccgtcag cctgccgttc tgctcgcgga tagcgttgct gatgctctgc
     4681 gagcttgatt gcagttccgc gccgatagac atctccagcc tcccgaactc gcgcttcacg
     4741 ctctgctcga tatcctgcgc ctgctgcttc gatttctcct cgaagccctt cgccaaattt
     4801 aaaatctcgc tcataaatca ttcctttcag ccggatattt ctgccaccgt ccggatcggc
     4861 aatgctgatg ctgcttttcg tttcccgcgc cacggtcagg ccgtagcttt ccagctgcgc
     4921 caccacgtcc tgccggctgc ggatcacacc ctgctgcatc aggttcatca ggccggtggt
     4981 gattttctct gccgccagct gtttgtcgcg gggcagatcg ctggcctgtg tcagcggtcg
     5041 gcgacaggtc gggtcgttcg ggtcacgcag ccccagccgg tcattag
//
