LOCUS       NZ_AP022968             4632 bp    DNA     circular CON 13-MAR-2024
DEFINITION  Bacillus cereus strain J62 plasmid pJ62_4, complete sequence.
ACCESSION   NZ_AP022968
VERSION     NZ_AP022968.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00203336
            Sequence Read Archive: DRR206376, DRR206400
            Assembly: GCF_021655215.1
KEYWORDS    RefSeq.
SOURCE      Bacillus cereus
  ORGANISM  Bacillus cereus
            Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus;
            Bacillus cereus group.
REFERENCE   1
  AUTHORS   Furuta,Y., Miyajima,Y., Maehana,S., Tsujinouchi,M. and Higashi,H.
  TITLE     Genomic sequence of Bacillus cereus isolated from bacteremia
            patients in Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4632)
  AUTHORS   Higashi,H. and Furuta,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-MAR-2020) Contact:Hideaki Higashi Hokkaido University,
            Research Center for Zoonosis Control; North 20, West 10, Kita-ku,
            Sapporo, Hokkaido 001-0020, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. 1.8
            Genome Coverage                   :: 428x
            Sequencing Technology             :: MinION R9.4 Flowcell; MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_021655215.1-RS_2024_03_13
            Annotation Date                   :: 03/13/2024 07:12:06
            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)                     :: 5,996
            CDSs (total)                      :: 5,850
            Genes (coding)                    :: 5,586
            CDSs (with protein)               :: 5,586
            Genes (RNA)                       :: 146
            rRNAs                             :: 12, 12, 12 (5S, 16S, 23S)
            complete rRNAs                    :: 12, 12, 12 (5S, 16S, 23S)
            tRNAs                             :: 105
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 264
            CDSs (without protein)            :: 264
            Pseudo Genes (ambiguous residues) :: 0 of 264
            Pseudo Genes (frameshifted)       :: 134 of 264
            Pseudo Genes (incomplete)         :: 142 of 264
            Pseudo Genes (internal stop)      :: 40 of 264
            Pseudo Genes (multiple problems)  :: 44 of 264
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022968.1.
            Annotated by DFAST v.1.2.5 (https://dfast.nig.ac.jp).
            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..4632
                     /organism="Bacillus cereus"
                     /mol_type="genomic DNA"
                     /strain="J62"
                     /isolation_source="human blood of bacteremia patient"
                     /host="Homo sapiens"
                     /db_xref="taxon:1396"
                     /plasmid="pJ62_4"
                     /geo_loc_name="Japan:Tochigi"
                     /collection_date="2006"
     gene            250..1095
                     /locus_tag="L6484_RS29755"
                     /old_locus_tag="BCJMU62_p41"
     CDS             250..1095
                     /locus_tag="L6484_RS29755"
                     /old_locus_tag="BCJMU62_p41"
                     /inference="COORDINATES: protein motif:HMM:NF014537.4"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase 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 factor domain-containing
                     protein"
                     /protein_id="WP_236801721.1"
                     /translation="METDISIDRLTLLGYDSGMIESYLKYSEYISFVGFSKNYSFRHMY
                     QGLNGELLEIGEKGKIRLDFNPNRANMPQVREIVSRLKYPYLTRLDVAVDYFGIDLSEI
                     EWTSIKRRKRNLWLSQSNEVETLYIGAPTSDKRYRIYNKRLERLEKKEEPDHRAVNGHW
                     RVEVQQRFQESNNILDPVDYFAADLFDIKPYRKVVDLDHIESAKERIMLRGLLAEPKEL
                     LNLNDRTRAKYKKMILEARERSGVAINPEPIEVYTKEKDLLAEQLTSLFAHCAKSVAQV
                     "
                     /name="replication initiation factor domain-containing
                     protein"
     gene            1514..1858
                     /locus_tag="L6484_RS29760"
                     /old_locus_tag="BCJMU62_p42"
     CDS             1514..1858
                     /locus_tag="L6484_RS29760"
                     /old_locus_tag="BCJMU62_p42"
                     /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_236801722.1"
                     /translation="MMMNLLSLQQEANGLIQDLNGKDISLMSLRQKASYSNRIVKVRMS
                     LEAYRNTPGVNELTNALDYLRVKLAEVPQQETRQQANGKRAEVIQNGLKETPYAIPQSF
                     YTVFGQNGQR"
                     /name="hypothetical protein"
     gene            1870..2175
                     /locus_tag="L6484_RS29765"
                     /old_locus_tag="BCJMU62_p43"
     CDS             1870..2175
                     /locus_tag="L6484_RS29765"
                     /old_locus_tag="BCJMU62_p43"
                     /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_236801724.1"
                     /translation="MILSKQYRIPKELHEKFKATTKKTGTTMNNALCHLIAEYVYRMEQ
                     LGLPEVKESTIFHVEPVEEEIKPKPKLRKPAKKKKDGEKNEGSKKDKAEAEKDSSE"
                     /name="hypothetical protein"
     gene            2123..2368
                     /locus_tag="L6484_RS29770"
                     /old_locus_tag="BCJMU62_p44"
     CDS             2123..2368
                     /locus_tag="L6484_RS29770"
                     /old_locus_tag="BCJMU62_p44"
                     /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_071721521.1"
                     /translation="MKEVKKIKLKRKKIVRNEEHFNLEFEKARLSIEIPVSTKENFKEA
                     VEKNGKTMKDVLEAYMQRYTMKVLQEEEKQDQMIKN"
                     /name="hypothetical protein"
     gene            2858..3058
                     /locus_tag="L6484_RS29775"
                     /old_locus_tag="BCJMU62_p45"
     CDS             2858..3058
                     /locus_tag="L6484_RS29775"
                     /old_locus_tag="BCJMU62_p45"
                     /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_071721522.1"
                     /translation="MDIEAKKEAFVTFLVEKVLFQTFAERTTSLEEKAVYEKFIKLYDQ
                     ELDRLNFELTIASVNRKRANL"
                     /name="hypothetical protein"
     gene            complement(3082..3204)
                     /locus_tag="L6484_RS29910"
                     /old_locus_tag="BCJMU62_p46"
     CDS             complement(3082..3204)
                     /locus_tag="L6484_RS29910"
                     /old_locus_tag="BCJMU62_p46"
                     /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_262726422.1"
                     /translation="MKKNKKQSKKQVKKAMKVVGITKDVVNFVGNLIRIYTFFF"
                     /name="hypothetical protein"
     gene            3635..3805
                     /locus_tag="L6484_RS29780"
                     /old_locus_tag="BCJMU62_p47"
     CDS             3635..3805
                     /locus_tag="L6484_RS29780"
                     /old_locus_tag="BCJMU62_p47"
                     /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_161491753.1"
                     /translation="MPKIMKASNVRVPKTFRIQQETLDSIEELQKKEGLSQGKILDLAI
                     QLLRREKELAQ"
                     /name="hypothetical protein"
     gene            3895..4611
                     /locus_tag="L6484_RS29785"
                     /old_locus_tag="BCJMU62_p48"
     CDS             3895..4611
                     /locus_tag="L6484_RS29785"
                     /old_locus_tag="BCJMU62_p48"
                     /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_071721523.1"
                     /translation="MKKDFKTNVIDVAIREFTEAEMPNGKYYTIVPQALHFCPFLDANE
                     LRIILALSAFADGKGKDRTNQSRLKKRANISSPTTLRDKLISLEEKYFIEINSSENKNG
                     GVPLTYTLKDLHSNPYILLSEAMEEVEGLAKEYYNVSTDNIVKKLNKIVRNENVYSSMV
                     AEIPHSIEGYQVALEKVAEHIKNEFEEERAQKEEKISNVVRFKKKVAEYKKKKAQCKKT
                     TRRKKTTYTGSKSQSL"
                     /name="hypothetical protein"
ORIGIN
        1 aaggtcatta tatattatct tttgtaaaat aaatacctaa ccaaaaattg attaggtact
       61 tagtcaaaaa ttgattacct tttaattaaa cctaaccaat ttttgattac aactaataag
      121 atattatata agactactaa atatatttat tctcaaaact ctctcgcaga ggttttgagt
      181 acattctata actaaagaaa ttactaaagc atactaagat agcaaataaa acggaaaaga
      241 gtgttaggta tggaaacaga tattagtata gaccgcctaa ctttgctagg atatgattcc
      301 ggaatgatag agagttacct taaatatagt gagtacattt cattcgtagg attttcaaag
      361 aactatagtt ttcgtcatat gtatcaagga ctaaacgggg agttattaga gataggcgag
      421 aaggggaaga tacgcttaga tttcaaccct aatagagcaa atatgccaca agttagagaa
      481 atcgtttctc gactgaaata cccgtatcta acgagacttg atgtagcggt agattacttt
      541 ggtatcgact tgtctgagat tgaatggaca agtattaaaa gacggaagcg gaatttatgg
      601 ttaagtcaat cgaatgaggt agagacatta tacataggtg caccaacgag cgataaacgg
      661 tatcgtattt ataacaaaag actagagcgg ttagaaaaga aagaagagcc ggaccataga
      721 gcagttaatg gacattggcg tgtggaagtg caacaacgtt ttcaagagtc caataacata
      781 ttagacccgg tagattattt tgcggcggat ttattcgaca ttaagcctta tagaaaggtg
      841 gtcgatttag atcatataga aagtgccaag gaaagaataa tgttaagagg tttattagca
      901 gagcctaagg agctattaaa cttaaatgat agaacaagag ctaaatataa gaagatgata
      961 ttagaagcaa gggaaagaag tggcgtggct ataaatcccg aaccaataga agtttataca
     1021 aaagaaaaag acttgttagc tgagcaacta acaagcctgt tcgcccactg tgctaagagc
     1081 gtagcacaag tgtaaacttt aaaactcata acaagtaaat atctaatgat agtatagcaa
     1141 aagaagagag ggaattcacc tctctttttc tttgttttaa ggggattcgt taagattata
     1201 tgtatttcct ttaagattat tgagttagat tgtgttttag gattaatagt tgtttattat
     1261 aggttactgt ttgaaaaaca ccccacccac cgcttatttg gttctgtgtc cgaaaatgcg
     1321 ctcctacacg ttcccgattt tattgagttt atataggtac ggtgacaatt taaaaataaa
     1381 tttaaattta tttagtaacc cagtatacag ttttttagaa aagagttact atgatggcaa
     1441 gaagaaaata tgtagattgc atagcacatc atatagcaga tttcatgttt tctaatcaaa
     1501 gggggaagtt attatgatga tgaatttatt aagtttacaa caggaagcta atggtttgat
     1561 ccaagattta aacggaaagg atatttcgtt aatgagtttg cgccagaagg ctagttattc
     1621 taatcgaata gtgaaagtta gaatgagcct tgaggcatat agaaatactc ccggagtaaa
     1681 tgaacttaca aatgcattag actatttgcg agttaagtta gctgaagtac cacaacaaga
     1741 aacacgacaa caggctaatg gaaaaagagc agaagtaatt caaaatgggt taaaagaaac
     1801 accttacgca ataccacaaa gtttttacac tgtatttgga caaaacgggc aacgatagga
     1861 gggtaaatga tgatacttag taagcaatat agaataccta aagagttaca tgaaaagttt
     1921 aaggctacta caaaaaagac ggggacgact atgaataatg ccctttgcca tttgatagct
     1981 gaatatgtgt atcgaatgga gcaattaggt ttgccagaag tgaaagaatc tactattttt
     2041 cacgttgaac cagtggaaga ggaaattaaa ccgaaaccta aattaagaaa gccggctaag
     2101 aagaaaaagg acggtgaaaa gaatgaagga agtaaaaaag ataaagctga agcggaaaaa
     2161 gatagttcgg aatgaggaac actttaactt agagtttgaa aaagcacggt taagtataga
     2221 gattcccgta tcaactaaag agaacttcaa agaagcggta gaaaaaaacg ggaagacaat
     2281 gaaggatgta ttagaagcat atatgcaacg atacacaatg aaagtattgc aggaagaaga
     2341 aaaacaagat caaatgatta aaaactaata gtaaagaagc tgaattcctc gaaatgatag
     2401 gggataaggg aactttttgt acgttttagt ttttatatgg tagaagtgca aaaaacacga
     2461 cacttctttc tgtaggacgc taatttacgc taaatgtatt agagaacccc gcaaggaata
     2521 gcggtgaacc aggaggcatt catgcgaggg catagtcctc gcggtttacg gtatgtcggt
     2581 ttttagggaa gaaatggcga ggtttaacga ggattggcga agaattaagg gttaaattaa
     2641 ttggttttca tcgagtatta gcgaagatta gggaagacca ctaaggaatc aaagcgtagc
     2701 ggttcattta caatgagaat gtccgtggta gcctattatg gcttgccaat ccttgtttga
     2761 gcgttagcga gttgaaggag tggggcattg gcttatgacc cacggactgg aggctcgttg
     2821 tcaatgattg aattccgttt attggaggaa gcaagttatg gatatagagg ctaagaaaga
     2881 agcatttgtg acttttcttg tagagaaagt tctatttcaa acatttgcgg aaaggactac
     2941 ttctttagaa gaaaaggcgg tgtatgaaaa gtttattaag ctatatgatc aagaattaga
     3001 tagactaaat ttcgaattga caatagcatc tgtaaataga aaaagagcta acctatagtg
     3061 ttatagatta gctctttttg tttagaagaa gaatgtataa attcggatta gatttccaac
     3121 aaaattgacc acgtcttttg ttattccgac taccttcatt gcttttttca cttgtttctt
     3181 agattgcttt ttatttttct tcataaatta attcctccta tatagtagtt attcgtcttt
     3241 ctatctatta cttgtgacgt tttttgagaa acccttattt tttttaaaag aaattttttt
     3301 cttacgtttt tataggcgca gccattctga tttaatggcg tgatatatat aaaacctgag
     3361 taaaaatatc aatttggatt gtcaatcaga aaaggagtta aggatttatt ttttaggaga
     3421 ttactctatt tggggactgg gtgctgtaac acccagttta ctctgtactt tttacgacca
     3481 ctaaactaag aagggttttg atttttagtt aaaactcgac tggagcggta gcggaaagag
     3541 agcattctat cttttttatt agtattagta gacaagataa atcattgatg ttaagctgtt
     3601 tttatgtatt acattttaag aaaggagtga tattatgcct aaaattatga aggctagtaa
     3661 cgtacgagtt cctaaaactt ttaggattca acaagaaaca ttggattcta ttgaagaatt
     3721 gcagaaaaaa gaaggtttga gccaagggaa gattttagac cttgctattc aattattaag
     3781 aagagaaaaa gagttagcac aataaaatgt atatcccatc gcaaataacg tagcatacta
     3841 acatagcaaa caagataaca aggagggaaa attaaaagga aaaggtgatc tatagtgaaa
     3901 aaagatttta aaacgaatgt tattgatgtg gctataaggg aattcacaga agcggaaatg
     3961 cctaatggaa agtattatac gattgttcca caagcgttgc atttctgtcc tttcttagac
     4021 gctaatgaat tacgtattat tttagccttg tcggcttttg ctgatggaaa aggtaaggat
     4081 agaactaatc aatcgagatt gaaaaagcgg gctaatatta gcagtcctac gactttaagg
     4141 gataagttaa ttagtttaga agagaaatac ttcatagaga taaattctag tgagaataag
     4201 aatggtggtg tgccattaac ttacactctg aaggatttac atagtaatcc ttatattctt
     4261 cttagcgaag cgatggaaga ggtagagggg ttagctaagg agtattacaa tgtttctact
     4321 gataacattg taaagaagtt aaataaaatc gtgcgtaatg aaaatgttta ttctagtatg
     4381 gtagctgaaa tacctcatag tattgaggga tatcaagtgg cactagaaaa ggtagctgaa
     4441 catatcaaga atgaatttga agaagaacga gcgcagaaag aagaaaaaat ttcgaatgta
     4501 gtgaggttta aaaagaaggt agctgaatat aaaaagaaaa aagcccagtg taagaaaaca
     4561 actaggcgca agaaaacgac ttatacggga agtaagtcgc aatctttata aaacatattg
     4621 aactaaacaa ct
//
