LOCUS       NZ_CP060842             6432 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Salmonella enterica strain 805 plasmid p805-3, complete sequence.
ACCESSION   NZ_CP060842
VERSION     NZ_CP060842.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15941600
            Assembly: GCF_022559385.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 6432)
  AUTHORS   Yue,M. and Ruan,Z.
  TITLE     Whole genome sequencing of Salmonella enterica serotype Goldcoast
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6432)
  AUTHORS   Yue,M. and Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2020) Department of Clinical laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022559385.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:23:35
            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)                     :: 4,720
            CDSs (total)                      :: 4,605
            Genes (coding)                    :: 4,480
            CDSs (with protein)               :: 4,480
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 125
            CDSs (without protein)            :: 125
            Pseudo Genes (ambiguous residues) :: 0 of 125
            Pseudo Genes (frameshifted)       :: 47 of 125
            Pseudo Genes (incomplete)         :: 90 of 125
            Pseudo Genes (internal stop)      :: 28 of 125
            Pseudo Genes (multiple problems)  :: 36 of 125
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060842.1.
            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..6432
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="805"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="p805-3"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2019-09"
                     /collected_by="Meina Yue"
     gene            join(6372..6432,1..650)
                     /locus_tag="IAR34_RS23555"
                     /old_locus_tag="IAR34_23395"
     CDS             join(6372..6432,1..650)
                     /locus_tag="IAR34_RS23555"
                     /old_locus_tag="IAR34_23395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000967646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000967645.1"
                     /translation="MLYWKKMPSLWIGNRIAEFSDLDTAKAIAALKIYLTFCLFCKESD
                     SGHRTVELTFSNLCEIASLSRSLVNEGLKILYAKELIKNISPTARKKIYTVDVLENHND
                     GWCKLPFKGVVDEDKKISAFQSMHNRYPFELLALQTYMYLLYARDNNSDYTLARKKTIC
                     KKLKCKLPELNKAITYLIHIGLLDRVVKKSIENIPLEMFHDSYYFYIKTGSKSALTYRR
                     KSEPPVIPEADLPF"
                     /name="hypothetical protein"
     gene            1444..1638
                     /locus_tag="IAR34_RS23560"
                     /old_locus_tag="IAR34_23400"
     CDS             1444..1638
                     /locus_tag="IAR34_RS23560"
                     /old_locus_tag="IAR34_23400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_001041636.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADVQAAMCERLHELA
                     EELQNSIQVHFEAENETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1875..3554)
                     /locus_tag="IAR34_RS23565"
                     /old_locus_tag="IAR34_23405"
     CDS             complement(1875..3554)
                     /locus_tag="IAR34_RS23565"
                     /old_locus_tag="IAR34_23405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000598747.1"
                     /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="AAA family ATPase"
                     /protein_id="WP_241467032.1"
                     /translation="MIKVQLPTREHRLHELNLNYGDVVFFIGQNGSGKSSLLNNLFQKI
                     GSQSSVYVLAHRKNTFSSDIIDFSNSEYKNAQGWIFNEIKGSQCRYRVNYDSQMVAIPI
                     VKLKNKVIARALSFVDSFKSNNNQPAGLIKSEVDVLNMVFADAKLSIEFFLDDEANVMA
                     RNIKGENPDIYPISMLSDGEKSALIIASEIICADENTTIFLDEPERHMHRSIVSPLLSS
                     LMKYRRDCVFFVATHELSLPAFFDNVKVVNVKNCYFSEQREPIYWDFNVVEDYDELFNG
                     VDEQTKIDILGARDKVLFVEGVTSSLDRDLYSAIFPMVSVVSKQKCDLVELAVKGLRLN
                     DEIHRVSAFGIIDNDNKVQAKVDNLKKDFIFSLDVHSIESIYYHPRMIKFVIDFVKEAN
                     GIDNVDALFMEIHDFAIDAINEKRDHLCCRAVEKTIRADLMSAIPKQQDIKNRIKFNKE
                     IDIECYVNKEIAAFDAMIAERNLDALVSRYPIRETNLLAHVAKKCGFADRSRYELNVIR
                     TIKSNADARAFVLSLLGGLDEAILGCSDTENSPADTHTVFAM"
                     /name="AAA family ATPase"
     gene            complement(3551..>4135)
                     /locus_tag="IAR34_RS23570"
                     /old_locus_tag="IAR34_23410"
                     /pseudo=""
     CDS             complement(3551..>4135)
                     /locus_tag="IAR34_RS23570"
                     /old_locus_tag="IAR34_23410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /note="internal stop; 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="replication initiation protein"
                     /name="replication initiation protein"
     gene            4705..4836
                     /locus_tag="IAR34_RS23670"
     CDS             4705..4836
                     /locus_tag="IAR34_RS23670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001422066.1"
                     /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_071525238.1"
                     /translation="MHDPPVQSDRCALSGNYHLESNPERHDLSPLAAAIGKGCTRDY"
                     /name="replication initiation protein"
     gene            5443..5958
                     /locus_tag="IAR34_RS23575"
                     /old_locus_tag="IAR34_23415"
     CDS             5443..5958
                     /locus_tag="IAR34_RS23575"
                     /old_locus_tag="IAR34_23415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000675351.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
                     /protein_id="WP_000675351.1"
                     /translation="MKFYTISSRYIEYLKGFEDKVPNSEDPNYQNPKAFIGIVLEIQGH
                     KYLAPLTSPKPWHSTIKESSPSFFKLHENGVPENQLGLINLKFMIPIIEAEVSLLDLNG
                     MPNTAYKRMLYKQLQFIRVNSDKIAEKSELLRKLVLQGKMQGTCNFSLLEEKYRDFGKE
                     ANDTEEGE"
                     /name="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
     Typing          complement(929..1184)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.574"
                     /coverage="89.0"
                     /evalue="2.65e-108"
     Typing          complement(1309..1408)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.02"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          4525..5033
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.553"
                     /coverage="99.0"
                     /evalue="1.7000000000000002e-157"
ORIGIN
        1 atcttgatac agcaaaagct atagcggcat taaaaattta tttaacattc tgcctgtttt
       61 gcaaagagtc agactctggc cacagaacgg ttgagttaac ctttagcaac ctttgcgaga
      121 tagcgtcatt aagccgttcc ttggtgaacg aaggccttaa aattctttat gcaaaagagc
      181 tgataaaaaa catatcgccg actgcacgaa aaaagattta taccgtggat gtgctagaaa
      241 atcataatga tggatggtgc aagcttccat ttaaaggagt tgtcgacgag gacaaaaaaa
      301 taagtgcatt tcaatccatg cacaacagat atccctttga gttactagcc ttacaaactt
      361 acatgtatct tctttacgct cgtgataata acagcgacta cacactggct aggaaaaaga
      421 ccatatgcaa aaaattgaaa tgcaaattac ctgaactaaa caaagcaatc acctacctta
      481 tccatatagg tttgcttgat agagttgtga aaaaatccat agaaaacata cctctagaga
      541 tgtttcatga ctcgtactat ttctatataa aaacaggcag taagagcgct ctaacctaca
      601 gaaggaaatc agaaccgcca gttattccag aagccgactt accattttga ttgtttattc
      661 cacaccaatt atcacacgga ttgaacataa catccgttgc ccgcacctca gaaacgcgct
      721 gaacgcgatt ctgacgcaaa taccgcaaaa agagatgttt tccccaaggt aaaccgaaaa
      781 aatgcgtcag gatcgttttc agctcgctgc atagctatgc atgaaagtga atggcgaacg
      841 gtttgggcgc atacggtgcc catgagacac attttcggac attttcagtt cgtgaatccc
      901 tgactcattg ctacatatct gaacagacac ccctagcagc gcccccaggg gcatcctgta
      961 aaaaaacaca ccgcgccgct agcagcaccc ctaatataaa atgatgtttt ttatgaaaat
     1021 agtcagtacc acccctacaa agcggtgtcg gcgcggtgtt gtagccgcgc cgacaccgct
     1081 tttttaaata tcacaaagag agcaagagaa actaatttgt cataactctc tatttataaa
     1141 gaaaaatcag caaaaaattg tttttgcgtg gggtgtgggc atttcaggca tgagaacaga
     1201 ctcgcgtttt tccggagtat cagcggaatt attgattaag aaacactcga cgcagagcga
     1261 aattttatgc aacagcggct gcactgcaca gggattattt atcagttgat atgctgtgcc
     1321 atgatacgtc ctaaaaaaaa caggacagga tgtgcaattg taataccgtc gcccgcaacg
     1381 tcttacaatt accacctagt cagggtccac ccgacacccg gtactgacgg agaacaacgg
     1441 aaggtgaaca aacagcaaca aactgcgctg aatatggcgc gatttatcaa aagccagagc
     1501 ctgacactgc ttgaaaaact ggatgctctg gatgccgacg tacaggcggc catgtgtgaa
     1561 cgactgcacg aactcgcaga agaactccag aacagcatcc aggttcactt tgaggccgaa
     1621 aatgaaacag gaacataacg aagctgacga aggcggtcac ggcttgcccg tgagcatttt
     1681 cgtcagcaga caagcccgtc agggcgcgtc agcgggtttt aacgggtgtc ggggcgcagc
     1741 cctgacccag tcacgtagcg atagcggagt gtatactgac ttaatacagc aactatcgta
     1801 catcgcggtc aagtcacgca caaacaaaaa gccccgcaaa agcagggctg ttatctgata
     1861 taggttgttt agtctcacat agcaaaaact gtatgggtat cagctgggct attttccgta
     1921 tctgaacatc ccaaaatagc ttcatctaac cctccgagga gggataaaac aaatgctcta
     1981 gcgtcagcat tactcttgat cgtacgaatc acgtttaact catatctaga gcgatcggca
     2041 aaaccacatt ttttagctac atgtgccaac aaatttgttt ctcggatagg gtagcgtgag
     2101 actaacgcat ccaaatttcg ttccgcgatc attgcatcaa atgcagcaat ttctttatta
     2161 acataacatt caatatcaat ttctttatta aacttaatgc ggttcttaat atcttgctgt
     2221 tttggtatgg ccgacattaa gtcggccctt attgtttttt caactgcacg gcagcataag
     2281 tgatcgcgct tttcatttat ggcatcaata gcgaagtcat gaatttccat aaataaggca
     2341 tcaacattat ctatcccatt agcctctttt acaaagtcaa tgacaaactt aatcattcta
     2401 ggatgataat aaatcgactc aatagaatga acgtcgagac taaaaatgaa gtctttcttt
     2461 aagttatcga ccttcgcctg caccttgtta tcattatcaa tgataccaaa cgccgatact
     2521 cgatgaattt cgtcatttag tctcaagcct tttaccgcca attcaaccaa atcacatttt
     2581 tgtttagata caactgaaac cataggaaat atggccgaat ataaatcacg gtcaaggcta
     2641 gacgtaacac cttcaacaaa tagaacctta tccctagcgc caagtatatc tattttagtt
     2701 tgctcatcaa caccattgaa taattcgtca taatcctcaa caacattgaa atcccagtat
     2761 atcggttctc tttgttcgga aaaatagcag tttttaacgt taaccacttt cacgttatca
     2821 aaaaacgcag gcaagcttaa ctcgtgggtg gcaacaaaaa aaacacaatc tctacgatat
     2881 ttcattaaag atgaaagcag cggagacaca atgcttctgt gcatatgtcg ctcaggctca
     2941 tctaagaaaa tagttgtgtt ttcatcagcg caaataatct cactggcaat aattagtgca
     3001 cttttttcac cgtcagaaag cattgatata ggataaatat caggattttc acctttaata
     3061 ttccttgcca taacgttggc ttcatcatct agaaagaact caatagataa tttggcatca
     3121 gcaaaaacca tgtttagaac atcaacctct gactttatta accctgccgg ctgattgtta
     3181 tttgatttaa atgaatctac gaaacttaaa gccctggcta tcactttgtt ttttaatttt
     3241 actataggta tggcaaccat ctgtgagtca taattaactc tgtatctaca ttgactgcct
     3301 ttaatttcat taaaaatcca tccctgcgca tttttatact cactattact gaaatcaata
     3361 atgtcgctgc tgaatgtatt ttttctatgc gctaaaacat atactgatga ttgagatcct
     3421 attttttgaa aaagattatt taataggctg gatttaccac taccattctg accaataaaa
     3481 aaaacgacat cgccataatt aagattaagc tcatgaagac gatgttctct agtaggtaac
     3541 tgaactttta tcattttcct ttctctttag cttttaatct aaaatacgtt gaacgactaa
     3601 ttcctaaatt aatccatgga gagtttaatg aaggcctacc tcctccttta ctttttttcc
     3661 cacatagaga ttggatgtct gccgaatggg tcttttttat aaaatcatca aatgatgact
     3721 ctgtaaaatt tttattagtc cacttagcta cacttttggc aatacccatg acttcgttct
     3781 cgtctaaagg tgcggagaac tgcaggttgt aggctttagc gcgttcaaag caagcttgta
     3841 gccattggtc atactgcggc cagccttggt ggatagcgcg gtaagcccac ttgcgggttt
     3901 tatcgaagag ggtgcagtta cggcctaaac cgtagtccgg taggatttcg cggtcattag
     3961 ctgcgccaag gtcgaggtag tcggctaatc agtcgagggt gtagagctca ggctgccaaa
     4021 cggtgatctg ccagtgcagg tggttcggat tctcgcaaat tagccctgaa taccccgcat
     4081 cggcgcccaa ttttttacgc agcgcattct caatgacggc tgcatatttg aggggggcgg
     4141 cgagccccct gaaccagtca cagaaggcac ctcgcagagg ggacgctgtg agtactgact
     4201 taactatgcg gtatcagtgc ggattgtatg aaaagtgcgc tattgacggt gtgaaatgcc
     4261 gcacagatgc gtaaggagaa aatgcaaatg cctacgctct tccgcttcct cgctcactaa
     4321 ctcgctgcgc tcggtcgttc ggctgtggcg agcggtatca gctcactcag agacggtaat
     4381 acggttatcc acagaatcag gggataaggc cggaaagaac atgtgagcaa aaaggcaaag
     4441 ccagggcaaa aggccgcgcc gctggcgttt ttccataggc tccgcccccc tgacaagcat
     4501 cacagaatct gacgctcaaa tcagtggtgg cgaaacccga caggacttaa agataccagg
     4561 cgtttccccc tggtggctcc ctcgtgcgct ctcctgttcc tgcctttcgg tttaccggtg
     4621 tcattccgct gttatggccg cgtttatctc attccacgcc tgacactcgg ttccgggtag
     4681 gcagttcgct ccaagctgga ctgtatgcac gacccccccg ttcagtccga ccgctgcgcc
     4741 ttgtccggta actatcatct tgagtccaac ccggaaagac acgacttatc gccactggct
     4801 gcggccattg gtaaggggtg tacaagagat tactgatgca gagttcttga agttagaacc
     4861 aaactacggc taaactggaa ggacgaattt ggtggcagcg gtcttgtaca ccctgttacc
     4921 acggttcaga agttccccaa cttactgaac catcgaaaaa ccacctcccc aggtggtttt
     4981 ttcgttttca gagcaagaga ttacgcgtag aaaaaaagga tctcaagcag atcctttttg
     5041 attcatgtca taacccaact tacccccccc cccacactga actgatgaaa aaaacagtca
     5101 actctggaat cagtacttta aaaaaacctc aaatgacatt ttgaggggat acagcggcaa
     5161 gggctacaac tacacagctg caagttacct agttgtaagc ctaggcgaag atcaggtata
     5221 ctcgaatcaa ggtgatttgc tacctttaag tgcagctaga aattcaggtg atttgctacc
     5281 ttaagtgcag ctagaaattc aggtgatttg ctacctttaa gtgcagctag aaattcaggt
     5341 gatttgctac cttaagtgca gctagaaatt taggtcattt actaccttaa agtaatacag
     5401 taaaagaggc gactacacag tcgccttttt tacgagaaaa aaatgaaatt ttacactata
     5461 tcaagcagat acattgaata cctaaaggga ttcgaagaca aagttcccaa tagcgaagat
     5521 cctaactatc agaatccgaa agctttcatt ggcattgtgt tagagattca agggcataag
     5581 tatctagccc ctttaacatc cccaaagcca tggcatagca ctattaaaga atcatcgcct
     5641 agcttcttta agctccatga aaatggtgtc cccgaaaatc agctcggatt gattaatctg
     5701 aagttcatga ttccaatcat cgaagccgaa gtatccttac ttgacttgaa cggtatgccg
     5761 aataccgcct acaagagaat gctctataag cagctccagt ttattcgtgt aaattcagac
     5821 aaaatagctg agaaatcaga gcttttaagg aagctcgtcc tgcaaggaaa aatgcaagga
     5881 acatgtaatt tttccctgtt agaagaaaaa taccgagatt tcggcaaaga agctaatgac
     5941 acggaagaag gcgagtaacg cttcattgcc atcctgaata gtgtccgaaa ccgagtgatc
     6001 ttggacacta ttcaggtcta atattcaaaa ctcaacggtt cgactcacat acatagttca
     6061 cggtgaacca tattatgatt aatacaaata ccaaaactca aataaaaaac cgttaaaaac
     6121 aacaagataa aaaattaaca tcacttttat ctttctagat agatttttgt gaaggcgtta
     6181 caacgccttc acaccctgag ataataaaaa caacaagaag cgattacgag gggtgaaaaa
     6241 tgtttgagaa aggcgtgtgt ctggttgaga ggcttgcgaa agtcgcagcg gtaataacta
     6301 accttgtgct ctcactttct atattgggat tggtctattt catctttcaa aacttggcct
     6361 tgaggtgatt catgctgtac tggaaaaaaa tgccttcact atggatagga aataggatcg
     6421 ctgaattcag cg
//
