LOCUS       NZ_CP137173             2154 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Citrobacter freundii strain F3517 plasmid pF3517-5, complete
            sequence.
ACCESSION   NZ_CP137173
VERSION     NZ_CP137173.1
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 2154)
  AUTHORS   Li,X.
  TITLE     Citrobacter freundii F3517 Genome sequencing and assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2154)
  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
            CP137173.1.
            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..2154
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="F3517"
                     /isolation_source="throat swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pF3517-5"
                     /geo_loc_name="China: Hangzhou"
                     /lat_lon="29.86 N 121.56 E"
                     /collection_date="2017-10-02"
                     /collected_by="Jayao Yao"
     gene            complement(26..214)
                     /locus_tag="R4T09_RS00005"
                     /old_locus_tag="R4T09_00005"
     CDS             complement(26..214)
                     /locus_tag="R4T09_RS00005"
                     /old_locus_tag="R4T09_00005"
                     /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(469..771)
                     /locus_tag="R4T09_RS00010"
                     /old_locus_tag="R4T09_00010"
     CDS             complement(469..771)
                     /locus_tag="R4T09_RS00010"
                     /old_locus_tag="R4T09_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005161566.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TM2 domain-containing protein"
                     /protein_id="WP_023207139.1"
                     /translation="MSSMVYCRGCGKEIHETAKSCPHCGATNASSGSGEKSRIAAALLA
                     FFLGGFGVHKFYLGKIGQGFLYLIFCWTFIPAIIAFIEFIIYLCDSDEKFARKYG"
                     /name="TM2 domain-containing protein"
     gene            complement(1079..1192)
                     /locus_tag="R4T09_RS00015"
                     /old_locus_tag="R4T09_00015"
     CDS             complement(1079..1192)
                     /locus_tag="R4T09_RS00015"
                     /old_locus_tag="R4T09_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_072202106.1"
                     /translation="MHEPPVQSDCCAFSGNYQLESNPERHDKAPLAAATGN"
                     /name="replication initiation protein"
     gene            1932..2132
                     /locus_tag="R4T09_RS00020"
                     /old_locus_tag="R4T09_00020"
     CDS             1932..2132
                     /locus_tag="R4T09_RS00020"
                     /old_locus_tag="R4T09_00020"
                     /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"
     Typing          1555..1727
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.954"
                     /coverage="100.0"
                     /evalue="2.04e-62"
     Typing          complement(1084..1630)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.625"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 ctaagtgagc gttcttttcg tctctttatt cgccgtcctg tataccgaag cgtgcgctca
       61 gcttctgata aagcgcttct gcctgttcgt gcattcgctc acagtcggct gcctcgtcat
      121 caagatcgag cacgtcgagt ttttcgagca gcagcagcga ctgcgcccgg ataaattttg
      181 ccatgttcag tgcggctgat tcctgttttg tcatacggct ttttcccggt tttatggtga
      241 tcgcagactg aaatcttact tcattcactt gagtgcatag ccatgcaggt acgcagaaat
      301 catcaggggc gttttttctc gatatgggca cagaaaggtg tatgtttcag gccggagtcc
      361 tcagaaacgc gctgagggcg tctcaggcgg tgcgggcaac ggatgttatg gtaaatctgc
      421 ctcacagact ggtacaaaaa aagccccgca gggctttttt gctatgagtt agccatattt
      481 tcttgcgaat ttttcatcgg aatcgcatag ataaataata aactcaataa acgcgatgat
      541 cgcgggtatg aatgtccagc aaaaaattag atacaggaat ccctgtccta ttttacctaa
      601 gtaaaattta tgtacgccaa atccaccaag gaagaatgct aatagcgcgg ctgcgattct
      661 acttttttca cctgaacctg aagaggcgtt tgtggctccg cagtgtgggc atgactttgc
      721 tgtttcgtgt atttccttgc cgcatcctcg gcagtaaacc attgaactca ttttttatcc
      781 tcgagcttat ttttagttgg gatgcataat atccgatgtt ttataacgat atgcatccta
      841 tatgctcggg tgggatagat ttccattatg gtgaaggatc ttcttgagat cctttctgta
      901 gcgtcgtaat ctcttgctct gtaaacgaaa aaaccgccca gcaaggcggt ttttcgaagg
      961 ttctcagagc agcaactctt tgaaccgtgg taactggctt acgaggagcg caggaaccaa
     1021 atctgttctt tcagtttagc cttaacaggc gcataacttc aagactaact cctctaaatc
     1081 agttaccagt ggctgctgcc agtggcgctt tgtcgtgtct ttccgggttg gactcaagtt
     1141 gatagttacc ggaaaaggcg cagcagtcgg actgaacggg gggttcgtgc atacagtcca
     1201 gcttggagcg aactgccttc ccggaactga gtgtcaggcg tggaatgaga taaacgcggc
     1261 cataacagcg gaatgacacc ggtaaaccga aaggcaggaa caggagagcg cacgagggag
     1321 ctaccagggg gaaacgcctg ggatctttat agtcctgtcg ggtttcgccg ccactgattt
     1381 gagcgtcaga tttcgtgatg cttgtcaggg gggcggagcc tatggaaaaa cggcttcgcc
     1441 gcggccttat cgtttccctg ttaagtttct tcctggcatc tcccaggaga tttccgcccc
     1501 attcgtaagc ccgcaccgct cgccgcagcc gaacgaccga gcgcagcgag tcagtgagcg
     1561 aggaagcgga atatctcctg tctcatatat tccgcttacg ctctgctgct gcattttcct
     1621 cctgccacat gaagcacttc actgattccc gcacccgtgc ctacatagta agccagtata
     1681 cactccgcta gcgctacgtg actggttcag ggctgcgccc cgacacccgc taaaagcact
     1741 gacgcgcctg cggcttgccc aaccccgcgc cgtccgggaa agaatttccc gatcgacccg
     1801 acgtttctgt ttacctgtga tgttaacgtt tggatctttt tcccgggttt acctattttc
     1861 ttctaatgaa gcgttcacag ctgacgttaa tagatgggtg cttcatgttt ggtttttcac
     1921 caggagaact tatgaacctt tgccccgatg aacgtctgct ctttgtgcgg atgatttccg
     1981 ctatgcttcg ccgttcgggc ggtgatgcgg gtgctgttat gtttgaggcg tatcgccata
     2041 ttgtgtccga taccaatcaa gctcgtcgtt cctacatgct cgacctgctc gaaagcgtca
     2101 ggcatgacta tgtacacggt ggatatacat agttgccatg gatacgcttt tcgt
//
