LOCUS       NZ_CP137178             2758 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Citrobacter freundii strain F3517 plasmid pF3517-4, complete
            sequence.
ACCESSION   NZ_CP137178
VERSION     NZ_CP137178.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37932926
            Assembly: GCF_036289085.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 2758)
  AUTHORS   Li,X.
  TITLE     Citrobacter freundii F3517 Genome sequencing and assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2758)
  AUTHORS   Li,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-OCT-2023) Laboratory Medicine Center, Department of
            Clinical Laboratory, Zhejiang Provincial People's Hospital
            (Affiliated People's Hospital, Hangzhou Medical College), Shangtang
            road, Hangzhou 310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/31/2024 01:50:58
            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)                     :: 5,333
            CDSs (total)                      :: 5,212
            Genes (coding)                    :: 5,100
            CDSs (with protein)               :: 5,100
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 112
            CDSs (without protein)            :: 112
            Pseudo Genes (ambiguous residues) :: 0 of 112
            Pseudo Genes (frameshifted)       :: 26 of 112
            Pseudo Genes (incomplete)         :: 84 of 112
            Pseudo Genes (internal stop)      :: 18 of 112
            Pseudo Genes (multiple problems)  :: 16 of 112
            Pseudo Genes (short protein)      :: 1 of 112
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137178.1.
            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..2758
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="F3517"
                     /isolation_source="throat swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pF3517-4"
                     /geo_loc_name="China: Hangzhou"
                     /lat_lon="29.86 N 121.56 E"
                     /collection_date="2017-10-02"
                     /collected_by="Jayao Yao"
     gene            join(2640..2758,1..82)
                     /locus_tag="R4T09_RS26650"
                     /old_locus_tag="R4T09_26650"
     CDS             join(2640..2758,1..82)
                     /locus_tag="R4T09_RS26650"
                     /old_locus_tag="R4T09_26650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_024148903.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(130..318)
                     /locus_tag="R4T09_RS26655"
                     /old_locus_tag="R4T09_26655"
     CDS             complement(130..318)
                     /locus_tag="R4T09_RS26655"
                     /old_locus_tag="R4T09_26655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(862..1284)
                     /locus_tag="R4T09_RS26660"
                     /old_locus_tag="R4T09_26660"
     CDS             complement(862..1284)
                     /locus_tag="R4T09_RS26660"
                     /old_locus_tag="R4T09_26660"
                     /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_080052137.1"
                     /translation="MTITYLALIFITLLTINIILKNRRSKKYLAYNICLAQFTYENEST
                     ENRARIENKAKEIIANGSSIQHMKNTIKQNNPLVIYGFYALAMDELGVPPLLYGFDRWY
                     PVRNPFLAEHGLSRHIEKAVDKIENKSKVQWEHWIN"
                     /name="hypothetical protein"
     gene            complement(1614..1760)
                     /locus_tag="R4T09_RS26665"
                     /old_locus_tag="R4T09_26665"
     CDS             complement(1614..1760)
                     /locus_tag="R4T09_RS26665"
                     /old_locus_tag="R4T09_26665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_114456554.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKAPLAAATGKRVYKRLLM
                     QSS"
                     /name="replication initiation protein"
     Typing          complement(1592..2141)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.737"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 taccaatcaa gctcgtcgtt cctacatgct cgacctgctc gaaagcgtca ggcatgacta
       61 tgtacacggt ggatatacat agttgccatg gatacgcttt tcgtctaagt gagcgttctt
      121 ttcgtctctt tattcgccgt cctgtatacc gaagcgtgcg ctcagcttct gataaagcgc
      181 ttctgcctgt tcgtgcattc gctcacagtc ggctgcctcg tcatcaagat cgagcacgtc
      241 gagtttttcg agcagcagca gcgactgcgc ccggataaat tttgccatgt tcagtgcggc
      301 tgattcctgt tttgtcatac ggctttttcc cggttttatg gtgatcgcag actgaaatct
      361 tacttcattc acttgagtgc atagccatgc aggtacgcag aaatcatcag gggcgttttt
      421 tctcgatatg ggcacagaaa ggtgtatgtt tcaggccgga gtcctcagaa acgccctgag
      481 ggcgcctgag gtggtgcggg caacggatgt tatggtaaat gtacctcaag gttggctctt
      541 tttatgtcct atagctgctt gcaggatatg agcatgtttc tattgatgac tgagccagcc
      601 attaatgatt gtgggttggc tgtaactaat gctccggaat cgccatttat actaaggatg
      661 ttatatcctt ttgctccaca cagttctcct gcctttgtta aacacattcc ccaatcacgg
      721 gccattcctg aacaagttaa actgtacgcc tcgtttccat ctgggccata gcttttgctt
      781 actgaagcac agccggaaag tagtacaaga cttaatgctg caattgttat ctttttcact
      841 tcacacctac tttatataaa gttaattaat ccaatgttcc cattgtactt ttgatttatt
      901 ttctattttg tctactgcct tttctatatg tcgactcagc ccatgttctg caaggaatgg
      961 gtttctaact ggataccacc tatcaaatcc atatagtaaa ggggggactc ctagctcatc
     1021 cattgctaat gcgtaaaagc cataaatcac aagcggattg ttttgtttga ttgtattttt
     1081 catgtgttga atggatgaac cattggctat tatttccttg gctttatttt ctattctggc
     1141 tctgttttct gtagattcat tttcataagt gaattgagca aggcagatgt tatatgctaa
     1201 atatttttta gaacgtctat tttttaatat tatattgatt gttagtaggg tgataaatat
     1261 aagagctaag tatgtgattg tcatttttac tagcttaaat ggtgattgtg catcatccaa
     1321 ctatacgatt ttttatgctt tattttcaaa gggttttgtc ggtgtgagtt tttgactggt
     1381 actgttgttt ggtatcggtt ttactttgat gtctgtcggt catcgaagat gaacctcttg
     1441 agatcctttc cgttgcgtcg taatctcttg ctctgaaaac gaaaaaacca cctggggagg
     1501 tggtttttcg aaggttcagt aagttgggga acttctgaac cgtggtaaca gggtgtacaa
     1561 gaccgctgcc accaaattcg tccttccagt ttagccgtag tttggctctg acttcaagaa
     1621 ctctgcatca gtaatctctt gtacaccctc ttaccagtgg ctgctgccag tggcgctttg
     1681 tcgtgtcttt ccgggttgga ctcaagtcga tagttaccgg aacaggcgca gcagtcggac
     1741 tgaacggggg gttcgtgcat acagtccagc ttggagcgaa ctgcctaccc ggaactgagt
     1801 gtcaggcgtg gaatgagata aacgcggcca taacagcgga atgacaccgg taaaccgaaa
     1861 ggcaggaaca ggagagcgca cgagggagcc accaggggga aacgcctggt atctttaagt
     1921 cctgtcgggt ttcgccacca ctgatttgag cgtcagattt cgtgatgctt gtcagggggg
     1981 cggagcctat ggaaaaacgg cttcgccgtg gccttcttgc ttccctgtta agcttcttcc
     2041 tggaagatgc caggaaattt ccgccccgct agtaagccgg taccgctcgc cgcagccgaa
     2101 cgaccgagcg gagcgagtca gtgagcgagg aagcggaata tctccgggct tatctttggc
     2161 accgtacgcg ccatagctgc attttttaat acgatgcagg atagggcaaa cgccgcaaaa
     2221 tgacgtcatc cgacatcatt ccgccgcgtt cgcccagtga cctacagtcg gctctggggt
     2281 gtcggggctg tgccctgacc aggcgttttg gagtatcgcc accgtggtgg cggtgctaca
     2341 aaacatatcc tgtcccttcc ttggcatctc tgaagtttag ccagtataca ctccgctagc
     2401 gctacgtgac tggttcaggg ctgcgccccg acacccgcta aaagcactga cgcgcctgcg
     2461 gcttgcccaa ccccgcgccg tccgggaaag aatttcccga tcgacccgac gtttctgttt
     2521 acctgtgatg ttaacgtttg gatctttttc ccgggtttac ctattttctt ctaatgaagc
     2581 gttcacagct gacgttaata gatgggtgct tcatgtttgg tttttcacca ggagaactta
     2641 tgaacctttg ccccgatgaa cgtctgctct ttgtgcggat gatttccgct atgcttcgcc
     2701 gttcgggcgg tgatgcgggt gctgttatgt ttgaggcgta tcgccatatt gtgtccga
//
