LOCUS       NZ_AP022974             5049 bp    DNA     circular CON 14-MAR-2024
DEFINITION  Bacillus cereus strain J75 plasmid pJ75_4, complete sequence.
ACCESSION   NZ_AP022974
VERSION     NZ_AP022974.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00203337
            Sequence Read Archive: DRR206377, DRR206401
            Assembly: GCF_021655235.1
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  JOURNAL   Unpublished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 5049)
  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                   :: 450x
            Sequencing Technology             :: MinION R9.4 Flowcell; MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_021655235.1-RS_2024_03_14
            Annotation Date                   :: 03/14/2024 04:10:44
            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)                     :: 5,881
            CDSs (total)                      :: 5,729
            Genes (coding)                    :: 5,502
            CDSs (with protein)               :: 5,502
            Genes (RNA)                       :: 152
            rRNAs                             :: 14, 14, 14 (5S, 16S, 23S)
            complete rRNAs                    :: 14, 14, 14 (5S, 16S, 23S)
            tRNAs                             :: 105
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 227
            CDSs (without protein)            :: 227
            Pseudo Genes (ambiguous residues) :: 0 of 227
            Pseudo Genes (frameshifted)       :: 103 of 227
            Pseudo Genes (incomplete)         :: 133 of 227
            Pseudo Genes (internal stop)      :: 48 of 227
            Pseudo Genes (multiple problems)  :: 51 of 227
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022974.1.
            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..5049
                     /organism="Bacillus cereus"
                     /mol_type="genomic DNA"
                     /strain="J75"
                     /isolation_source="human blood of bacteremia patient"
                     /host="Homo sapiens"
                     /db_xref="taxon:1396"
                     /plasmid="pJ75_4"
                     /geo_loc_name="Japan:Tochigi"
                     /collection_date="2006"
     gene            complement(join(4757..5049,1..553))
                     /locus_tag="L6478_RS29210"
     CDS             complement(join(4757..5049,1..553))
                     /locus_tag="L6478_RS29210"
                     /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="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_236796018.1"
                     /translation="METDISIDRLTLVGYDTGMIEGYLKYSEYISFVGFSKNYGFRHSY
                     QGIKGELLEIGEKGKVRLDFNPNTANMEQVRDVVSRLKYIYLTRLDIAIDYFGVDLSEV
                     EWTSPKRRKQNLWLDPEGQQETRYIGAPSSERRYRIYNKKLERLEKKEELDPRAVNGQW
                     RVEVQQRFKESNNILDPIDYFTGDLFDIRPYRKVVDLSHIEKPMERIIIAGLMARPSEL
                     KNLSKNARGKYKKMIQEAREKSGVAINPEPIEVYTKEKDLLAEQLTSLFAHCAKSVAQV
                     "
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(756..1478)
                     /locus_tag="L6478_RS29215"
                     /old_locus_tag="BCJMU75_p41"
     CDS             complement(756..1478)
                     /locus_tag="L6478_RS29215"
                     /old_locus_tag="BCJMU75_p41"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="WP_236796021.1"
                     /translation="MKKAFAENYINPVVERFSELDTPNGGFYTSIPQAVQYCWFLDDKE
                     LSVLLALSTYADENGRCKVYQRTLARKVKIKSTTTLRTKLKSLVKKRFILQVNTDGESS
                     IYQIKDYSTNPYILLSEAIEKVEQVAKKKYGVSVSKIAETMDELIASKIDYMAMITKIE
                     ESFNGYDVALKSVQGYVNEALGLEMDISLQTKKPRRERGFKMSKVIKPKQPKRNREFII
                     SEGESEAPVKREGLRLRL"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1571..1723)
                     /locus_tag="L6478_RS29220"
                     /old_locus_tag="BCJMU75_p42"
     CDS             complement(1571..1723)
                     /locus_tag="L6478_RS29220"
                     /old_locus_tag="BCJMU75_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_236796023.1"
                     /translation="MPKVVSSKEKMQPKTFKLHPRTIEQIKELAEKKQMTQAEVIDKAL
                     KLLAR"
                     /name="hypothetical protein"
     gene            2592..2738
                     /locus_tag="L6478_RS29225"
                     /old_locus_tag="BCJMU75_p43"
     CDS             2592..2738
                     /locus_tag="L6478_RS29225"
                     /old_locus_tag="BCJMU75_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_236796009.1"
                     /translation="MKKTKKQAKKQPKKQPKKQMKTAMKIVGITKDVVNFVGNLIRIYT
                     FFF"
                     /name="hypothetical protein"
     gene            complement(2762..2962)
                     /locus_tag="L6478_RS29230"
                     /old_locus_tag="BCJMU75_p44"
     CDS             complement(2762..2962)
                     /locus_tag="L6478_RS29230"
                     /old_locus_tag="BCJMU75_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_236796011.1"
                     /translation="MDIEAKKEAFVTFLVEKVLFQTFAERTTSLEEKEVYEKFIKLYDQ
                     ELNRLNFELTIASVNRKRANL"
                     /name="hypothetical protein"
     gene            complement(3446..3685)
                     /locus_tag="L6478_RS29235"
                     /old_locus_tag="BCJMU75_p45"
     CDS             complement(3446..3685)
                     /locus_tag="L6478_RS29235"
                     /old_locus_tag="BCJMU75_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_236796012.1"
                     /translation="MEVKKIKIKPKKIVRNEENHKLEFDKVRLSIEIPISIRDNFKEAV
                     EKNGKTMKEVLEAYMQRYSVKELLTDLKEETIDN"
                     /name="hypothetical protein"
     gene            complement(3666..4004)
                     /locus_tag="L6478_RS29240"
                     /old_locus_tag="BCJMU75_p46"
     CDS             complement(3666..4004)
                     /locus_tag="L6478_RS29240"
                     /old_locus_tag="BCJMU75_p46"
                     /inference="COORDINATES: protein motif:HMM:NF015807.4"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Arc family DNA-binding protein"
                     /protein_id="WP_236796014.1"
                     /translation="MSDNVNFPLRIPRELRDKFKKVSQKTGTSMNSSICQLIAEHIYKM
                     EQLGLKDIEEPNVIQVTPVKEETKAFIKKAIKEADEAKELAETKTKKRLRKSPKKKIGG
                     ETDGSKKD"
                     /name="Arc family DNA-binding protein"
     gene            complement(4016..4339)
                     /locus_tag="L6478_RS29245"
                     /old_locus_tag="BCJMU75_p47"
     CDS             complement(4016..4339)
                     /locus_tag="L6478_RS29245"
                     /old_locus_tag="BCJMU75_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_236796016.1"
                     /translation="MMMNLLSLQQEANSVIQDLNGKDISSMSLIQKANYSNRIVKVRMS
                     LEAYRNTPGVNEFINALDHLRFKLAEVQQQETRQQANKRRAEIIQNGIKETPYPTMPMF
                     LNN"
                     /name="hypothetical protein"
ORIGIN
        1 taaaataatc aatagggtct aatatgttat tggactcttt aaaacgttgt tgtacctcaa
       61 cacgccactg tccattaact gctctagggt ctaactcttc tttcttttct aaccgttcta
      121 acttcttgtt ataaatacga taccttctct cacttgatgg cgcacctatg tatctcgttt
      181 cttgttgccc ttctgggtct aaccataagt tttgttttct tcgtttaggg cttgtccact
      241 caacctcaga taaatctaca ccaaaataat ctatcgctat atctaatcgc gttaaataga
      301 tgtatttcag tcgagaaacg acgtctctta cctgctccat atttgcggta ttagggttaa
      361 aatctaaacg taccttccct ttctcgccta tctcaagcaa ttctcctttt atcccttggt
      421 atgaatgacg aaaaccataa ttcttagaaa accccacgaa tgaaatatat tccgagtatt
      481 taagataccc ttctatcatt ccagtatcgt atccaacgag agttaggcgg tctatactaa
      541 tatctgtttc catcctaaac actcatttcc gttttatttg ctatcttagt atgcttcagt
      601 aatttctttg atagatatat atattaattt ctttttagta ttttatattt agtagtaatc
      661 aaattttgat taagaggtac acaaaaattg tgtaaggggt aatcaatttt tgactaggta
      721 ttcaagtcct ataaggtaat atataattac cttattcaaa gtcgtaatct aagaccttcc
      781 cgtttcacag gagcttcaga ttcaccctct gaaataataa attctctgtt acgtttaggt
      841 tgcttaggtt taataacttt actcatctta aaacctcgtt cccgtcgagg ttttttcgtt
      901 tgtaaagaaa tatccatttc taatcctaaa gcctcattta cataaccttg tacagatttt
      961 aaagctacat cataaccatt aaaactttcc tctatcttag ttatcatagc catataatct
     1021 atcttactag caattaattc atccatcgtt tcagctattt tagatactga aacaccatat
     1081 ttctttttag ctacctgttc gactttttca atagcctcac taagaagaat ataaggattg
     1141 gtagaataat ctttaatctg ataaatacta gattctccat ctgtattaac ctgcaatata
     1201 aaacgcttct tcactaaact tttcaattta gttcgtaatg ttgttgtact tttaatctta
     1261 actttcctag ctaacgttcg ttgatatacc ttgcaacgtc cattttcgtc tgcataggtc
     1321 gatagtgcta ataatacact taactcttta tcatctaaaa accaacagta ttgaactgct
     1381 tgtggaatgg aagtatagaa accgccattt ggagtatcta attcactaaa acgttccaca
     1441 acaggattaa tataattctc tgcaaatgcc tttttcatta cagatcacct tttcctttta
     1501 attttccctc cttgttatct tgtttgctat gttagtatgc tacgttattt gcgatgggat
     1561 atatattttt ttatcgtgct aataacttta acgccttatc aatcacttca gcttgcgtca
     1621 tttgcttctt ttcagctaat tcctttattt gttcaatcgt cctaggatgc aatttaaatg
     1681 ttttgggttg catcttttcc ttagaactaa ctactttcgg cataatatca ctcctcaaca
     1741 caatgatagg tactccctaa aaacagctta acatcaacga ttctatttgt ccacttcaaa
     1801 aacagtcaaa aaacacataa aaaaatagaa caaactaata aggacatttt tttgatcaaa
     1861 aaagaaagga gaaaacctaa aacaaaaaac attttgatat ggtgaatccc tcgaaagagg
     1921 acgctaaccc gctgttagag aagcgggttt ttcgacgtgt cgaacatccc tatagttata
     1981 aaaaatcaga gcaagaacta gaatacatag ttcttaatca tccgaacaaa acccaaactt
     2041 tttgggagac tattttcaaa tgaaaaatcg ttattgtttt gtatagaaag agtaatggca
     2101 cttttgagct actatttggg ctactaaatt agataccttt ttcaatcttt atccaagata
     2161 cacttttcta tagaggataa tctcgataaa aagacggata aatcacggat aaattaagga
     2221 taaagagaag gataaatact atgaagaaaa gctctaaaat ttaactaaga aaagaatcac
     2281 accaacacga acaatataat gtgcctatct ctttgaagaa aaaaactctt aatacaaatc
     2341 tctcaaaaag tgtcacaaaa catagatgaa aagacgaata gaaaactagg aggtgttatt
     2401 ccattgacaa tccaaattga tatttttact caagttttat acatatagca aaccaaaaaa
     2461 ccttagtatc tgcgcctatg tttataaaag aaattttttt gaaaaagaat aaaaaaaata
     2521 aggatttctc aaaaaacgtc acaagtaata gatagcaaga cgaacaacta ctaaataggg
     2581 ggaattaatt tatgaagaaa actaaaaaac aagcaaaaaa acaacctaag aaacaaccta
     2641 agaaacaaat gaagacagca atgaaaatag tcggaataac aaaagacgtg gtcaattttg
     2701 ttggaaatct aatccgaatt tatacattct tcttctaaac aaaaagagct aatctataac
     2761 attataggtt ggctcttttt ctatttacag atgctattgt caattcgaaa tttagtctat
     2821 ttaattcttg atcatatagc ttaataaact tttcatacac ctctttttct tctaaagaag
     2881 tagtcctttc tgcaaatgtt tgaaatagaa ctttctctac aaggaaggtc acaaatgctt
     2941 ctttcttagc ttctatatcc ataacttact tcctccaata agcggaattc aatcattgac
     3001 aacgagcctc cagtccgtgg gtcataagcc aatgccccac tccttcaact cgctaacgct
     3061 caaacaagga ttggcaagcc ataacaggct accacggaca ttctcattgt aaatgaaccg
     3121 ctacgctttg attccttagt ggtcttccct aatcttcgct aatactcgat gaaaaccaat
     3181 taatttaacc cttaattctt cgccaatcct cgttaaacct cgccatttct tccctaaaaa
     3241 ccgacatacc gtaaaccgca aagactatgc cctcacatga atgcctcctg gttcaccact
     3301 atcttaggaa gaatacttat agttgtttag cgtaaattta gcgatatttt tattgatagg
     3361 tcgtgttttt tctactttta ccaactataa aatttaagcc ttaaaaatgt acatgtattc
     3421 aaggtttaaa cgaggtattc agattctaat tatctattgt ttcttctttt aaatccgtta
     3481 atagctcttt aacactatac ctttgcatat atgcttctaa tacttccttc atcgtcttcc
     3541 cgttcttttc taccgcttct ttaaagttat ctctaataga aatagggatt tcaatgctta
     3601 atcttacctt atcaaattct aatttatgat tttcttcatt acgcactatt tttttaggtt
     3661 tgatcttaat cttttttact tccatctgtt tcaccgccta ttttcttctt gggcgacttt
     3721 cttaatcttt ttttcgtctt agtttcagct aattccttag cttcatcagc ttcttttata
     3781 gccttcttta taaacgcctt tgtttcttct ttaaccggcg taacttgaat tacattaggt
     3841 tcttctatat ccttcaatcc taattgctcc attttataaa tgtgttccgc tattagttgg
     3901 caaattgatg agttcatact cgtcccagtc ttctgtgaaa cctttttaaa cttatcccgc
     3961 aattcacgag gtattctcaa tggaaaatta acattatcgc tcatatccta tcctcctaat
     4021 tatttagaaa cattggcatc gttgggtacg gtgtttcttt tattccattt tgaattattt
     4081 cagctcttct tttattagcc tgttgtcgtg tttcctgttg ttgtacttca gctaacttaa
     4141 atcttaagtg gtccaatgca tttataaatt catttactcc cggagtattt ctatatgcct
     4201 caaggctcat tctaactttc actattcgat tagaataatt agccttctgg atcaaactca
     4261 ttgaagaaat atccttaccg tttaaatctt gaatcacact gttagcttcc tgttgtaaac
     4321 ttaacaaatt catcatcata atattttccc tcttttctgt tgtgataatc aatacgacta
     4381 ttaaattgat tatcaatatg atagtcattt ataaaaacat cgtaactctt aaccaaaaat
     4441 ctgtatactg ggttacttaa aaaatttaaa atttattttt aaattgtcac cttacctata
     4501 taaaaattaa caaaatcgag agggtgtagg agcgcatttt cagatacaga acctaataag
     4561 cggtgggtgg ggtgtttttc aaacaatagc ctaaatagac aactattaat cctaaagcac
     4621 gagctaacgc aataaactta aaggaaatac atatattctt aacgaatccc cttaaaacaa
     4681 agaaaaagag aggtgaattc cctctcttct tttgctatac taacattaga tatttacttg
     4741 ttataagttt taaagtttac acttgtgcta cgctcttagc acagtgggcg aacaggcttg
     4801 ttagttgctc agctaacaag tctttttctt ttgtataaac ttctattggt tcaggattta
     4861 tcgctacacc gcttttttcc ctagcctctt gtatcatctt cttatactta cctctagcgt
     4921 tcttactaag attcttaagt tcactaggtc ttgccattaa tcccgctatt ataattcgtt
     4981 ccataggctt ttctatatga gataaatcaa ccacctttcg atatggtcta atatcgaata
     5041 gatcacctg
//
