LOCUS       NZ_AP022516             3653 bp    DNA     circular CON 30-JAN-2024
DEFINITION  Citrobacter portucalensis strain STN0717-72 plasmid pSTN0717-72-3,
            complete sequence.
ACCESSION   NZ_AP022516
VERSION     NZ_AP022516.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195990
            Sequence Read Archive: DRR199795
            Assembly: GCF_015138175.1
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.
            STN0717-72 isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3653)
  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                   :: 877x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 09:07:39
            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)                     :: 5,251
            CDSs (total)                      :: 5,137
            Genes (coding)                    :: 4,941
            CDSs (with protein)               :: 4,941
            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)              :: 196
            CDSs (without protein)            :: 196
            Pseudo Genes (ambiguous residues) :: 0 of 196
            Pseudo Genes (frameshifted)       :: 35 of 196
            Pseudo Genes (incomplete)         :: 147 of 196
            Pseudo Genes (internal stop)      :: 33 of 196
            Pseudo Genes (multiple problems)  :: 17 of 196
            Pseudo Genes (short protein)      :: 1 of 196
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022516.1.
            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..3653
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="STN0717-72"
                     /isolation_source="sewage"
                     /db_xref="taxon:1639133"
                     /plasmid="pSTN0717-72-3"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-07-17"
     gene            102..350
                     /locus_tag="JLF48_RS26130"
                     /old_locus_tag="STN0717CIT72_P30010"
     CDS             102..350
                     /locus_tag="JLF48_RS26130"
                     /old_locus_tag="STN0717CIT72_P30010"
                     /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            416..1117
                     /locus_tag="JLF48_RS26135"
                     /old_locus_tag="STN0717CIT72_P30020"
     CDS             416..1117
                     /locus_tag="JLF48_RS26135"
                     /old_locus_tag="STN0717CIT72_P30020"
                     /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_181946399.1"
                     /translation="MFISKKNSRLRERFREYSSNADIFDLADLRYEILKIYCDFKLKSD
                     MNEQERKSQDSRRKAHLTALKKRIKREIVSKIVIDLVKYYNIEKTTFHFFSHICTEILE
                     RNVDNRYILNNFSNMILDEKKELTKLSKSRDASSKMILESSYDELVSMSHIKDKLFINN
                     NFKTAYLNCYACANEEFSRFKVFALPECYERLDFLFEEERIKKEEKEISKIMVEQVEEE
                     QKIQQQKKRRL"
                     /name="hypothetical protein"
     gene            1492..2601
                     /locus_tag="JLF48_RS26140"
                     /old_locus_tag="STN0717CIT72_P30030"
     CDS             1492..2601
                     /locus_tag="JLF48_RS26140"
                     /old_locus_tag="STN0717CIT72_P30030"
                     /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 aaaaatagta gattgagaga gcgatttaga gaatattcaa gtaatgcaga
      481 catatttgat cttgctgatt tgagatatga aatattaaaa atatattgtg atttcaaatt
      541 aaaaagcgat atgaatgagc aagaaagaaa atcgcaagac tcaagaagaa aagcacattt
      601 aacagcatta aaaaaaagaa ttaaacgaga aatcgtctca aaaatagtta ttgatttagt
      661 gaaatattac aatatagaaa aaactacttt ccattttttt tctcatatat gcactgagat
      721 tttagaaaga aatgttgata acagatacat tttaaataat ttttcaaaca tgattttaga
      781 cgaaaaaaaa gagttaacga aattaagtaa aagcagagat gcttcaagca aaatgatttt
      841 agagagctcg tatgatgaac ttgtttctat gtcacatata aaagataaat tattcataaa
      901 taacaatttc aaaactgcat atttaaattg ttatgcttgt gcaaatgaag aattttcgag
      961 atttaaagtt tttgctcttc ctgaatgtta tgaaagatta gattttttat ttgaagaaga
     1021 aagaataaaa aaagaagaaa aagaaatatc taaaataatg gttgaacaag ttgaagaaga
     1081 acaaaaaata cagcaacaaa agaagagaag gctataattt tttttgcagc gaatcgtgag
     1141 aaaaataaaa ttttaatttt gttttttgag cgattgatct gtgtgtaagt tgatgaaaaa
     1201 tctagtaaaa tctgcgatct attttttctt ttgacttgcc attattgtta tttttgttat
     1261 aacaataatg gggggttgtc ttttacttga aaaatgagcg tcagcgaaat tttgaaagga
     1321 aaagtgtgcg aagagcacaa aacccctttg ctttttttcg taatgacatt ttaaaaatat
     1381 ttcattttga gcgaagcgaa atttgaaaat ttttaatttg gaatgaagaa aaaaggcaaa
     1441 cctgcggagt aaaattaaaa caaaaaaaac tataaaaaaa atgaggtgac tatggaattt
     1501 aaaataaaga aaatgactgt taaagacagc agagaaatta aaaaaagatt tgaagattgc
     1561 attaagatag cagaagaaaa aaatatgcaa gtgggctcaa ttttaaatat tgagatgcaa
     1621 gatagattga aagaaattaa tttaaaagta aaaaaagaaa cagcagaaca atatagaaaa
     1681 ttgtttaatt ataaattgtc tgtgaatgca gaagatatta ttcaacactt gttagaatgc
     1741 aacacaagaa acagttttga taaaacaaga actgctttta gattttgtat agctgaaaaa
     1801 atacaagagc taagaaacga agcagatcga gcaagaaaac aaaagaattt tgatttaatg
     1861 aaagaaaaaa ccattgaagc atataagttg tttttctttt ttgagcgaga ttttttgagc
     1921 gaaaatcgcg taacttggaa tgatatttct tacagaaaaa tagaatctaa aagcaaaaaa
     1981 aagactatga atagtgtttc aagtatcaaa gcaatttttg aagatttgaa gcaaaagcca
     2041 gagctttttg ataagtattc aatgatttta gcaatttcaa gtttgaccgg ttgccgtccg
     2101 gctgagatcc aaaaaggaat tgggctggaa ctaagcccac cactattaaa tatatgtatt
     2161 agcggggcga aagtgggcga agatcgaggg caggaaaaaa gaatattgaa attcaatata
     2221 aatgaatttg ctgaaaatga gcagttcaaa ttgattatgt ccaaaataaa gcaaaataat
     2281 aaattagaat ataaatgctc aaagcaagag tatgattcat tgagacaata tttgtatatc
     2341 aaccataaag gtttttcact ttatacatta agacacagag cagcgagcga attaaaaaaa
     2401 gagggtttta cagaagaaac aatagctgca tttttgggtc acagagtaac tagatctctg
     2461 gaaaattacg gctatgcaag atctggcaaa ggtggtccaa aaatcgcagg tgttgagcac
     2521 tcaaacgcga ttaaaagcaa tacaaagcga tttgagaaga aaaccaaccc aggaggggta
     2581 aaaccctact cctactcgta aacgagcctt aaaacgattt tagagagtta ccaggggtca
     2641 gcaatgctga tccctcatat gtgtgttagc ctcgcgcgcg cgtcttgcca gcagagatct
     2701 gtgccggctg gttgcatatg tgtattagca gaaccacaga tcggtgtggt tcgttgtgtg
     2761 gtcggtgtaa ttaactaatc aatatatgtg ttagcaggcg gcacgcgcgc gagtagtgcc
     2821 cggaacggga aaaggggaag gtttcagagg tttttaggtt agatttgaga gtgatcagcc
     2881 atcaaatttt ttgacgaagt attgacagaa cagatagata gattataact gagtccagat
     2941 acaacaaaac cagcctaagc tggttttgag ggactctaag aaggtggaac ttctaaaagt
     3001 cttgtaatca agtgatctca cccactcgat tacgatatgt aagtaagaat ttaactcaca
     3061 ttttcgtaaa agtcaaactt cacttcattg caatactcaa aaaaaatcca tctttttcaa
     3121 gtctttaagc aaccaaattg cgcatattgt gtcgtgcctg aaactgtgga atcaagaggg
     3181 tccggtttcg gttggttgtt ggcaatagaa ggggatctca caaattgccg aacctggagg
     3241 cggagttcta aggttgtttt ggtgagcagt gttgtattgg taggctatga gaaagcccag
     3301 ccaaaacagt tataaagctg tttaaaatgg ggttaactgt cgcaaaaaat gattatgaac
     3361 agtatctaga gggtgtgagg gggtgccgtg tgttggaaac aatgcacagc tcgatagtct
     3421 agaactttgt ggtgaagtcc aaactttgca atcacacaaa tcgcccttac tgattttttt
     3481 gaaataatcc ttacttttta ggggattaca acaaaaaatc ggtaggggag acctttgggt
     3541 gaagccctgt aaagggctga acacaaaggt cttagcgaag ccacagcaaa acaataccta
     3601 tctgttatag agaaaaagca atgcttcttt gtagaaagat agaaaaccaa tac
//
