LOCUS       NZ_AP022493             2830 bp    DNA     circular CON 30-JAN-2024
DEFINITION  Citrobacter portucalensis strain STN0717-27 plasmid pSTN0717-27-7,
            complete sequence.
ACCESSION   NZ_AP022493
VERSION     NZ_AP022493.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195946
            Sequence Read Archive: DRR199751
            Assembly: GCF_015137095.1
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.
            STN0717-27 isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2830)
  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                   :: 734x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 08:45:51
            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)                     :: 5,147
            CDSs (total)                      :: 5,032
            Genes (coding)                    :: 4,899
            CDSs (with protein)               :: 4,899
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 35 of 133
            Pseudo Genes (incomplete)         :: 79 of 133
            Pseudo Genes (internal stop)      :: 31 of 133
            Pseudo Genes (multiple problems)  :: 11 of 133
            Pseudo Genes (short protein)      :: 1 of 133
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022493.1.
            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..2830
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="STN0717-27"
                     /isolation_source="sewage"
                     /db_xref="taxon:1639133"
                     /plasmid="pSTN0717-27-7"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-07-17"
     gene            102..1085
                     /locus_tag="JLF36_RS25595"
                     /old_locus_tag="STN0717CIT27_P70010"
     CDS             102..1085
                     /locus_tag="JLF36_RS25595"
                     /old_locus_tag="STN0717CIT27_P70010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000427687.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_200921660.1"
                     /translation="MDNVGNKNNKVKYENLADRSDKDQIWDHHRKETDLVSVLYEQEKE
                     FYRYFERMEDCSGRLEFSQLVNKDTGEMKIKLKSAHFCRVRHCPVCQWRKSLMWKARYW
                     KALPEIQSKYPSGRWLFFTLTVRNCEITEVKNTIQNMHKAFIKLIQRKHFKTYNLGFIK
                     TTEITRSKTGTAHPHFHVLLFMKSTYFNIGYMKNEAWSELWRDCLGVDYTPSVKIKTVR
                     NKKTGEVVKMGEDGMEHAVAETLKYSVKPADMYADREWFHEMTRQVHKMRFVSTGGVLK
                     DIFSEDVSEEEMLLLNDEEETDEDLNNNIFFNWHKKNSKYRRKIVE"
                     /name="protein rep"
     gene            1262..2437
                     /locus_tag="JLF36_RS25600"
                     /old_locus_tag="STN0717CIT27_P70020"
     CDS             1262..2437
                     /locus_tag="JLF36_RS25600"
                     /old_locus_tag="STN0717CIT27_P70020"
                     /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_200921661.1"
                     /translation="MSYQFIHIEDYSKVISKKRGNGGKGKYNEETKGRSVRDIIAEAKR
                     EEGNCPHVENPKPPLLLYGKNLDEVEKLAYEYHENTKLTDKNGKEKKLRSDANILLAGV
                     VSLNRENEDIWDEYKNDAIAFLSNKYGKKLVSVIEHTDEANPHFHFYVIQEPGKRFDLI
                     HDGKKALFENRDKKKHDQNIAYLNAMRKVQEDFFRVVSSNYGLSKDGPKRKRTSRKDYF
                     KQKREIKLIQQVKEQAKIDGYNFAVDDFHGKSWLNKVVTSFTVKNSTLQEAIARGDRYK
                     KGLSSTKKKLKNTESDLEETEKELSSLKDNFKERVNNQTSLLKDKNNKLTVENENIKKQ
                     NEQLEHENKNLKTILEESLPLYELLKNKYGDRFEEWKESLFNTMKTKLKLK"
                     /name="plasmid recombination protein"
ORIGIN
        1 gaaagaaatt tgcaagatcg ggtatctatt gacaaaaaaa atcctcttgt taagtttgca
       61 attgtctagg tcgcaaaaaa taacaagagg atcacgtttt catggataat gtaggtaata
      121 aaaataataa agtcaagtac gaaaacttgg cagatcgatc tgataaagat caaatatggg
      181 atcatcatag aaaagaaact gaccttgttt ctgttttata tgaacaggaa aaagagtttt
      241 atcgttattt cgaaagaatg gaagattgtt ccggtcgttt agagttttca cagcttgtaa
      301 ataaagacac tggagaaatg aagattaaat taaaatctgc tcatttctgt cgagttcgtc
      361 actgccctgt gtgccagtgg cgaaaatctt tgatgtggaa agccagatat tggaaagcac
      421 ttcctgagat acaatcaaaa tatccttctg gtaggtggct attttttact ttaacagtta
      481 gaaactgtga aataacagaa gtaaaaaaca caatccaaaa tatgcataaa gcattcatta
      541 aactaatcca gagaaaacat tttaaaactt ataatctggg ttttatcaag acaactgaaa
      601 taacaagatc gaagacggga acggcacacc ctcactttca tgtattatta ttcatgaagt
      661 ctacttattt taatatcggt tatatgaaaa atgaggcttg gagtgaactt tggagggatt
      721 gtttaggtgt ggattacaca ccgtcagtaa agattaaaac agtcaggaac aagaagacgg
      781 gtgaagtggt caagatgggt gaagacggca tggaacatgc tgttgcagag actttgaagt
      841 attcagtaaa gccagcagat atgtatgcag atcgtgaatg gttccatgag atgacaagac
      901 aagtccataa gatgagattt gtctctacgg gtggagtgct gaaagatata ttcagcgaag
      961 atgtatcaga agaagaaatg ttattattga atgacgagga agaaacagac gaggatttaa
     1021 ataataatat attctttaac tggcataaga aaaacagcaa atatagacga aagattgtag
     1081 agtaaaaaag gcaccgctaa ggtgcttttt ttatgccttt gacttttccc cgtaggggcc
     1141 ggcgtttatt gcgaagcaat aaacatagtc ggtccctatg tttattaaaa cgggatttac
     1201 aaactattaa aatatgctaa aaataaaaca ttggggaaat aaaatataag gggaaaatat
     1261 aatgtcatat cagtttatac atattgaaga ttactctaaa gtaatatcaa aaaaaagagg
     1321 caatggcggc aagggaaaat ataacgaaga aacaaaaggg agatctgtaa gagatattat
     1381 agctgaagca aaaagagagg aagggaactg tccacatgtt gaaaatccca aacctcctct
     1441 tttgttgtat ggtaaaaatt tagatgaggt tgaaaagtta gcttatgaat atcatgaaaa
     1501 tacaaagcta actgataaga acggaaaaga aaaaaagtta agatctgatg caaatatatt
     1561 acttgctggt gttgtttctt tgaataggga aaatgaagac atttgggatg agtataaaaa
     1621 cgatgccatc gcttttcttt caaataaata tggtaaaaag ttagtttctg taatagagca
     1681 tactgacgaa gcaaatccac actttcactt ttatgttatt caagaacccg gaaaacgatt
     1741 tgatttaata catgatggaa aaaaagcttt atttgaaaac agagacaaga aaaaacacga
     1801 tcagaatata gcttatttaa atgccatgag aaaagttcaa gaagattttt ttcgtgtcgt
     1861 atcttctaac tatggtttat caaaggatgg tccgaagaga aaaaggacca gccgaaagga
     1921 ttattttaag caaaaaagag aaataaaact tattcagcaa gtaaaagaac aggcaaaaat
     1981 agatggttat aattttgcag tggatgattt tcatgggaaa agctggttaa acaaggtcgt
     2041 aacttctttt actgttaaaa acagcacctt acaggaagcc atcgccagag gtgataggta
     2101 taaaaaagga ctttccagca caaaaaagaa acttaaaaat acagagagtg atttagaaga
     2161 aacagaaaaa gaactatctt cactaaaaga taactttaaa gaaagagtga ataatcaaac
     2221 atcattactt aaagataaaa ataataaact aactgttgag aatgagaata taaaaaaaca
     2281 aaatgagcag ttagagcatg aaaataaaaa cctaaaaacc attttggaag agtctcttcc
     2341 tctctacgag cttttgaaaa ataaatatgg agatcgcttt gaagaatgga aagaaagttt
     2401 atttaacacc atgaaaacca aactgaaact taaatagtca ataagaaaat cgggggttcc
     2461 ctgaaagggt tccgattttg ttgttgacta cgcacaaaaa taaaacttgt tagggttgaa
     2521 ggtgaacaaa gtgagccttc aacctgataa actgtttttc tgccctttga gccgtttcgg
     2581 ggtggtttct ggtggctcat agtggcagaa ccccgtaaaa ctcgttacag gccgttttag
     2641 gggccttcct gacggtccta aaccgtcatg gccctgagct ggaagagtct tccagtgggg
     2701 tggttttggg gtttgatttt ggaccggaac gggccggttt tacctcatct tgatacctga
     2761 gggataacgt ggatttcaaa aagtggcttg aagccttgtg gcagtaggct tggagtgggt
     2821 tttggagtgt
//
