LOCUS       NZ_AP022398             3652 bp    DNA     circular CON 30-JAN-2024
DEFINITION  Citrobacter portucalensis strain STW0522-27 plasmid pSTW0522-27-4,
            complete sequence.
ACCESSION   NZ_AP022398
VERSION     NZ_AP022398.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195868
            Sequence Read Archive: DRR199673
            Assembly: GCF_015135075.1
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.
            STW0522-27 isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3652)
  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                   :: 250x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 08:32:53
            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)                     :: 5,290
            CDSs (total)                      :: 5,181
            Genes (coding)                    :: 4,964
            CDSs (with protein)               :: 4,964
            Genes (RNA)                       :: 109
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 77
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 217
            CDSs (without protein)            :: 217
            Pseudo Genes (ambiguous residues) :: 0 of 217
            Pseudo Genes (frameshifted)       :: 41 of 217
            Pseudo Genes (incomplete)         :: 167 of 217
            Pseudo Genes (internal stop)      :: 34 of 217
            Pseudo Genes (multiple problems)  :: 22 of 217
            Pseudo Genes (short protein)      :: 1 of 217
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022398.1.
            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..3652
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="STW0522-27"
                     /isolation_source="sewage"
                     /db_xref="taxon:1639133"
                     /plasmid="pSTW0522-27-4"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-05-22"
     gene            102..350
                     /locus_tag="JLF33_RS26280"
                     /old_locus_tag="STW0522CIT27_P40010"
     CDS             102..350
                     /locus_tag="JLF33_RS26280"
                     /old_locus_tag="STW0522CIT27_P40010"
                     /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_117054938.1"
                     /translation="MEIEKLIDRYFLALERKVIREIYNKHTREELEKFIFKCNSEFREF
                     EHRFNTICSTEYYKQQSLIFYINYINAEFEQREKLNY"
                     /name="hypothetical protein"
     gene            442..1116
                     /locus_tag="JLF33_RS26285"
                     /old_locus_tag="STW0522CIT27_P40020"
     CDS             442..1116
                     /locus_tag="JLF33_RS26285"
                     /old_locus_tag="STW0522CIT27_P40020"
                     /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_200923082.1"
                     /translation="MRERFREYSSNADIFDLADLRYEILKIYCDFKLKSDMNEQERKSQ
                     DSRRKAHLTALKKRIKREIVSKIVIDLVKYYNIEKTTFHFFSHICTEILERNVDNRYIL
                     NNFSNMILDEKKELTKLSKSRDASSKMILESSYDELVSMSHIKDKLFINNNFKTAYLNC
                     YACANEEFSRFKVFALPECYERLDFLFEEERIKKEEKEISKIMFEQVEEEQKIQQQKKR
                     RL"
                     /name="hypothetical protein"
     gene            1491..2600
                     /locus_tag="JLF33_RS26290"
                     /old_locus_tag="STW0522CIT27_P40030"
     CDS             1491..2600
                     /locus_tag="JLF33_RS26290"
                     /old_locus_tag="STW0522CIT27_P40030"
                     /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_200923083.1"
                     /translation="MEFKIKKMTVKDSREIKKRFEDCIKIAEEKNMQVGSILNIEMQDR
                     LKEINLKVKKETAEQYRKLFNYKLSVNAEDIIQHLLECNTRNSFDKTRTAFRFCIAEKI
                     QELRNEADRARKQKNFDLMKEKTIEAYKLFFFFERDFLSENRVTWNDISYRKIESKSKK
                     KTMNSVSSIKAIFEDLKQKPELFDKYSMILAISSLTGCRPAEIQKGIGLELSPPLLNIC
                     ISGAKVGEDRGQEKRILKFNINEFAENEQFKLIMSKIKQNNKLEYKCSKQEYDSLRQYL
                     YINHKGFSLYTLRHRAASELKKEGFTEETIAAFLGHRVTRSLENYGYARSGKGGPKIAG
                     VEHSNAIKSNTKRFEKKTNPGGVKPYSYS"
                     /name="hypothetical protein"
ORIGIN
        1 taaagaataa aaaaatagag ttcgaagaaa aaaattggcg atttgatttt tttttgcaat
       61 ttgctattta aattctaaat ataattaaaa aaggaaaatt tatggaaata gaaaaattga
      121 tagatagata ttttttagca ttagaaagaa aagtgatccg tgaaatttat aataaacata
      181 cacgagaaga attagaaaaa tttattttta agtgtaatag tgagtttaga gagtttgaac
      241 accgatttaa tacaatctgc tctactgaat attataaaca acaaagcctt atcttttata
      301 ttaattatat aaatgcagag tttgagcaga gggagaagtt aaattattaa atttgacaat
      361 attaaaataa tatattaagc atatgtgtat tagtgaaaaa gagagggctt aatatatgtt
      421 tatttcaaaa aaaatagtag attgagagag cgatttagag aatattcaag taatgcagac
      481 atatttgatc ttgctgattt gagatatgaa atattaaaaa tatattgtga tttcaaatta
      541 aaaagcgata tgaatgagca agaaagaaaa tcgcaagact caagaagaaa agcacattta
      601 acagcattaa aaaaaagaat taaacgagaa atcgtctcaa aaatagttat tgatttagtg
      661 aaatattaca atatagaaaa aactactttc catttttttt ctcatatatg cactgagatt
      721 ttagaaagaa atgttgataa cagatacatt ttaaataatt tttcaaacat gattttagac
      781 gaaaaaaaag agttaacgaa attaagtaaa agcagagatg cttcaagcaa aatgatttta
      841 gagagctcgt atgatgaact tgtttctatg tcacatataa aagataaatt attcataaat
      901 aacaatttca aaactgcata tttaaattgt tatgcttgtg caaatgaaga attttcgaga
      961 tttaaagttt ttgctcttcc tgaatgttat gaaagattag attttttatt tgaagaagaa
     1021 agaataaaaa aagaagaaaa agaaatatct aaaataatgt ttgaacaagt tgaagaagaa
     1081 caaaaaatac agcaacaaaa gaagagaagg ctataatttt ttttgcagcg aatcgtgaga
     1141 aaaataaaat tttaattttg ttttttgagc gattgatctg tgtgtaagtt gatgaaaaat
     1201 ctagtaaaat ctgcgatcta ttttttcttt tgacttgcca ttattgttat ttttgttata
     1261 acaataatgg ggggttgtct tttacttgaa aaatgagcgt cagcgaaatt ttgaaaggaa
     1321 aagtgtgcga agagcacaaa acccctttgc tttttttcgt aatgacattt taaaaatatt
     1381 tcattttgag cgaagcgaaa tttgaaaatt tttaatttgg aatgaagaaa aaaggcaaac
     1441 ctgcggagta aaattaaaac aaaaaaaact ataaaaaaaa tgaggtgact atggaattta
     1501 aaataaagaa aatgactgtt aaagacagca gagaaattaa aaaaagattt gaagattgca
     1561 ttaagatagc agaagaaaaa aatatgcaag tgggctcaat tttaaatatt gagatgcaag
     1621 atagattgaa agaaattaat ttaaaagtaa aaaaagaaac agcagaacaa tatagaaaat
     1681 tgtttaatta taaattgtct gtgaatgcag aagatattat tcaacacttg ttagaatgca
     1741 acacaagaaa cagttttgat aaaacaagaa ctgcttttag attttgtata gctgaaaaaa
     1801 tacaagagct aagaaacgaa gcagatcgag caagaaaaca aaagaatttt gatttaatga
     1861 aagaaaaaac cattgaagca tataagttgt ttttcttttt tgagcgagat tttttgagcg
     1921 aaaatcgcgt aacttggaat gatatttctt acagaaaaat agaatctaaa agcaaaaaaa
     1981 agactatgaa tagtgtttca agtatcaaag caatttttga agatttgaag caaaagccag
     2041 agctttttga taagtattca atgattttag caatttcaag tttgaccggt tgccgtccgg
     2101 ctgagatcca aaaaggaatt gggctggaac taagcccacc actattaaat atatgtatta
     2161 gcggggcgaa agtgggcgaa gatcgagggc aggaaaaaag aatattgaaa ttcaatataa
     2221 atgaatttgc tgaaaatgag cagttcaaat tgattatgtc caaaataaag caaaataata
     2281 aattagaata taaatgctca aagcaagagt atgattcatt gagacaatat ttgtatatca
     2341 accataaagg tttttcactt tatacattaa gacacagagc agcgagcgaa ttaaaaaaag
     2401 agggttttac agaagaaaca atagctgcat ttttgggtca cagagtaact agatctctgg
     2461 aaaattacgg ctatgcaaga tctggcaaag gtggtccaaa aatcgcaggt gttgagcact
     2521 caaacgcgat taaaagcaat acaaagcgat ttgagaagaa aaccaaccca ggaggggtaa
     2581 aaccctactc ctactcgtaa acgagcctta aaacgatttt agagagttac caggggtcag
     2641 caatgctgat ccctcatatg tgtgttagcc tcgcgcgcgc gtcttgccag cagagatctg
     2701 tgccggctgg ttgcatatgt gtattagcag aaccacagat cggtgtggtt cgttgtgtgg
     2761 tcggtgtaat taactaatca atatatgtgt tagcaggcgg cacgcgcgcg agtagtgccc
     2821 ggaacgggaa aaggggaagg tttcagaggt ttttaggtta gatttgagag tgatcagcca
     2881 tcaaattttt tgacgaagta ttgacagaac agatagatag attataactg agtccagata
     2941 caacaaaacc agcctaagct ggttttgagg gactctaaga aggtggaact tctaaaagtc
     3001 ttgtaatcaa gtgatctcac ccactcgatt acgatatgta agtaagaatt taactcacat
     3061 tttcgtaaaa gtcaaacttc acttcattgc aatactcaaa aaaaatccat ctttttcaag
     3121 tctttaagca accaaattgc gcatattgtg tcgtgcctga aactgtggaa tcaagagggt
     3181 ccggtttcgg ttggttgttg gcaatagaag gggatctcac aaattgccga acctggaggc
     3241 ggagttctaa ggttgttttg gtgagcagtg ttgtattggt aggctatgag aaagcccagc
     3301 caaaacagtt ataaagctgt ttaaaatggg gttaactgtc gcaaaaaatg attatgaaca
     3361 gtatctagag ggtgtgaggg ggtgccgtgt gttggaaaca atgcacagct cgatagtcta
     3421 gaactttgtg gtgaagtcca aactttgcaa tcacacaaat cgcccttact gatttttttg
     3481 aaataatcct tactttttag gggattacaa caaaaaatcg gtaggggaga cctttgggtg
     3541 aagccctgta aagggctgaa cacaaaggtc ttagcgaagc cacagcaaaa caatacctat
     3601 ctgttataga gaaaaagcaa tgcttctttg tagaaagata gaaaaccaat ac
//
