LOCUS       NZ_AP022407             2906 bp    DNA     circular CON 30-JAN-2024
DEFINITION  Citrobacter portucalensis strain STW0522-30 plasmid pSTW0522-30-8,
            complete sequence.
ACCESSION   NZ_AP022407
VERSION     NZ_AP022407.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195870
            Sequence Read Archive: DRR199675
            Assembly: GCF_015135215.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter portucalensis
  ORGANISM  Citrobacter portucalensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     complete genome sequences of Citrobacter portucalensis str.
            STW0522-30 isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2906)
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-FEB-2020) Contact:Tsuyoshi Sekizuka National Institute
            of Infectious Diseases, Pathogen Genomics Center; 1-23-1 Toyama,
            Shinjuku-ku, Tokyo 162-8640, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: flye v. 2.5; minimap v. 0.2-r124; racon v. 1.1.0;
            circlator v. 1.5.3; Pilon v. 1.18; SPAdes v. 3.11.1; A5-miseq v.
            20140604
            Genome Coverage                   :: 387x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 09:04:00
            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)                     :: 5,249
            CDSs (total)                      :: 5,135
            Genes (coding)                    :: 4,958
            CDSs (with protein)               :: 4,958
            Genes (RNA)                       :: 114
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 177
            CDSs (without protein)            :: 177
            Pseudo Genes (ambiguous residues) :: 0 of 177
            Pseudo Genes (frameshifted)       :: 35 of 177
            Pseudo Genes (incomplete)         :: 134 of 177
            Pseudo Genes (internal stop)      :: 29 of 177
            Pseudo Genes (multiple problems)  :: 19 of 177
            Pseudo Genes (short protein)      :: 1 of 177
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022407.1.
            Annotated by DFAST v.1.2.3 (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..2906
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="STW0522-30"
                     /isolation_source="sewage"
                     /db_xref="taxon:1639133"
                     /plasmid="pSTW0522-30-8"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-05-22"
     gene            102..1379
                     /locus_tag="JLF43_RS26340"
                     /old_locus_tag="STW0522CIT30_P80010"
     CDS             102..1379
                     /locus_tag="JLF43_RS26340"
                     /old_locus_tag="STW0522CIT30_P80010"
                     /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="plasmid recombination protein"
                     /protein_id="WP_236116550.1"
                     /translation="MKSQFMHVELYSREEPAKKTINKSKNINHKSDVRTTTVNGVLSEM
                     KREEGFTSHLEAIAAPEVLYGSISDLERSIERYEAEFKTTDKNGKEKKLRKDACILLAG
                     VVSIDRADEEIWDEYKTKSIEYLKNKYGENLKCVVEHTDETNPHFHFYVVGNQQQDLNL
                     LHDGKLAVSKLAKEDKKKLHQTVYTEAMIKFQDDFYTKVSNKFGLSRTGEEPRERYKSR
                     PDYLRFKKRQETALNILSDIEEFEADIKEKARKTGYSKGAKQFQNKTWVIKIGEAIKLL
                     GKEHKAELDQKEKELEKIKKEKTEIETELNLKKEELSNAYSQRNEASRKNSVYIDKVNA
                     LKKENKLLLPYKDQFDLKLQQEKEPLQAEVNSLTSENTNLKNENSELKKENLDFKEFIL
                     GVKDYYGSKFDEWCKEIFKTKTKYKY"
                     /name="plasmid recombination protein"
     gene            2003..2764
                     /locus_tag="JLF43_RS26075"
                     /old_locus_tag="STW0522CIT30_P80020"
     CDS             2003..2764
                     /locus_tag="JLF43_RS26075"
                     /old_locus_tag="STW0522CIT30_P80020"
                     /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="MarR family transcriptional regulator"
                     /protein_id="WP_200927162.1"
                     /translation="MNITTILDESLRIEYKELDKFLARYDLTSDEKLAVYQFHSKASKK
                     NKGLVVSEQKDESYKSIKEGVEYVHLFPKNLKALIKEYGLSTNELLVLTEIMESMLSHG
                     NLLINFSQKRLCELTGINKSTMSKVFRSLKEKRCLIENNENTYLNSVIFMKGLPQKLFM
                     QYRDHFLKSIDYKLSDKENFEEVFDDKFIELYEKNLQAIKDKRKELKEMKKKKAEEKFE
                     NKLNEEVKKIEENKVEENQLSLNAMEWVDIE"
                     /name="MarR family transcriptional regulator"
ORIGIN
        1 tgacagcgta atagatatag tcggttccta tagctattga cagaaaaacc atagatgtta
       61 attaacataa taaggaaagc aaaaatatag gagaataaaa aatgaaatca cagtttatgc
      121 atgtagaact ctacagcaga gaagaaccag caaaaaagac aataaataaa agtaaaaata
      181 taaatcataa atctgatgtt agaacaacaa ccgtaaacgg tgtgttgtca gaaatgaaaa
      241 gggaggaagg ttttacatct catttagaag ccatagctgc accggaggtg ctctatggct
      301 ctataagcga tctagaacgc tctatagagc gttacgaggc tgaatttaag actactgata
      361 aaaacggcaa agagaagaag ctacgcaaag atgcatgcat cttgcttgct ggtgtagttt
      421 ctatagatcg agcagatgaa gagatctggg atgaatataa gacaaaatca attgaatatt
      481 tgaaaaataa atatggtgaa aatttaaaat gtgttgttga gcatacagac gaaacgaacc
      541 cacattttca tttttatgtt gtaggaaatc agcagcaaga tttaaatttg ctgcatgatg
      601 gaaaactcgc agtatctaaa ttagcaaaag aagataagaa aaaattacat caaacagtct
      661 acacagaagc tatgatcaaa tttcaagatg atttttatac aaaggtatct aataaatttg
      721 gattgagcag aacgggcgag gagccgcgag aacgctataa atcccgccct gactacttga
      781 gatttaaaaa aagacaagaa acagcattaa atatattatc tgatatagaa gaatttgaag
      841 ctgatattaa agaaaaggca aggaaaacgg gatatagtaa aggtgcaaaa caatttcaaa
      901 ataaaacatg ggtaattaag attggtgagg caattaaatt acttggaaaa gagcataaag
      961 cagaattaga ccaaaaagaa aaagagttag aaaaaataaa aaaagaaaaa acagaaattg
     1021 aaactgagct taatttgaaa aaagaagaat tatccaatgc atatagtcaa agaaatgaag
     1081 catcgagaaa aaacagcgtt tatattgata aagtaaacgc tctaaaaaaa gaaaataaat
     1141 tattacttcc atacaaagat caatttgatt tgaaattaca gcaggaaaaa gagccattac
     1201 aagcagaagt caactctttg acttctgaaa ataccaattt gaaaaatgag aattcagaac
     1261 tgaaaaaaga aaatttagat ttcaaagaat ttattttggg tgttaaagat tattatggat
     1321 ctaaatttga tgaatggtgt aaagaaatat tcaaaacaaa gacaaaatac aaatattaat
     1381 ctgaaatata ttcatatctg ccgcctatgt ggtgtatgag acaccacata ggcggcctga
     1441 cagcgtttag ctgtcatagc tgggatttat cccaaaaaaa tggttttgca cgcagctgta
     1501 aatttatata tatcaataac ttataaagaa aaaatgcaaa tgcattgata tgatttgatg
     1561 ctaaaacgat aagaaaaata tcaatatgac attaacagta accgtgagaa ctgcaggagc
     1621 ttgctcctgt ggttcgaggg gttggccagc ccggcgaggg cggttttaat tttttttcca
     1681 ttagatgtat taaaagatat taggagtttc ttaggagtaa aaaaacacac tctaaagtat
     1741 tgatattact gtatttataa aaatagcggt tgtcgtaaac ttcaaccgta gttgtcaaaa
     1801 acttcaactg cagttgtcgt aaccttcaac tcaagttgtc gtaaccttct actttttgat
     1861 tttttggcta aaaaataggc ggtttccaat agtagacggc agtttctagg tggaaacttt
     1921 ttctatattt ttcaacttta tctattgact agattgcagg aaatgttaaa aactatatat
     1981 aacttaataa aaggagattt taatgaatat aacgacaata ttagatgaga gcttaagaat
     2041 agaatataaa gagcttgata agtttttagc aagatatgat ttaacatcag atgaaaaact
     2101 agctgtatat cagtttcatt ctaaagcatc gaaaaaaaat aaaggtctag ttgtttctga
     2161 gcaaaaagac gaatcctata aatcaattaa agaaggagta gaatacgtgc atttatttcc
     2221 taaaaatcta aaagcactta taaaagaata tggtttatca actaatgagc ttttagtttt
     2281 aacagaaata atggaaagta tgctttcgca cggaaactta ttaataaatt tctcacaaaa
     2341 aagattgtgc gaattaactg gtattaataa atctacaatg tctaaagtct ttagaagtct
     2401 taaagaaaaa agatgcttga tagaaaacaa cgaaaacact tatttaaatt ctgtgatctt
     2461 catgaagggt ttaccacaaa aattattcat gcagtacaga gatcattttt tgaaatctat
     2521 tgattataaa ctatctgaca aagaaaactt tgaagaagtt tttgacgata aatttattga
     2581 actatatgag aaaaatcttc aagcaataaa agataaaaga aaagaactca aagaaatgaa
     2641 aaagaaaaaa gcagaagaaa aatttgaaaa taaattaaat gaagaagtaa aaaaaataga
     2701 agaaaacaaa gttgaagaaa atcaactttc tctaaatgct atggaatggg ttgatattga
     2761 atagtaaaac taatgctacc gcgcttcgct tgctgaatcc cataaccccg caaatatgaa
     2821 atttgcaagg ttatgggatt ttctttttgg tgttgatttt ggttttaccc tcggagagcc
     2881 gcatctatgg agcgtcatat gaaata
//
