LOCUS       NZ_CP154593             3030 bp    DNA     circular CON 09-MAY-2024
DEFINITION  Citrobacter freundii strain NFYY361 plasmid pNFYY361-6, complete
            sequence.
ACCESSION   NZ_CP154593
VERSION     NZ_CP154593.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN41129895
            Assembly: GCF_039554995.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 3030)
  AUTHORS   Chen,J., Li,X. and Rui,Y.
  TITLE     Citrobacter freundii strain NFYY361
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3030)
  AUTHORS   Chen,J., Li,X. and Rui,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-APR-2024) Laboratory Medicine Center, Nanfang
            Hospital, Southern Medical University, North Guangzhou Avenue,
            Guangzhou 1838th, GuangZhou 510515, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. V0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 323.0x
            Sequencing Technology             :: Illumina; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_039554995.1-RS_2024_05_08
            Annotation Date                   :: 05/08/2024 13:35:01
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,768
            CDSs (total)                      :: 5,648
            Genes (coding)                    :: 5,491
            CDSs (with protein)               :: 5,491
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 41 of 157
            Pseudo Genes (incomplete)         :: 109 of 157
            Pseudo Genes (internal stop)      :: 29 of 157
            Pseudo Genes (multiple problems)  :: 22 of 157
            Pseudo Genes (short protein)      :: 1 of 157
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP154593.1.
            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..3030
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="NFYY361"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pNFYY361-6"
                     /geo_loc_name="China: Guangzhou"
                     /lat_lon="23.19 N 113.33 E"
                     /collection_date="2023"
                     /collected_by="Jing Chen"
     gene            1..513
                     /locus_tag="AAIM57_RS28820"
                     /old_locus_tag="AAIM57_28820"
     CDS             1..513
                     /locus_tag="AAIM57_RS28820"
                     /old_locus_tag="AAIM57_28820"
                     /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_053507525.1"
                     /translation="MTKVTVDYPSSISRRKLSNLFNHSPFMLSLVHDMCDSQAIVLAAM
                     CEGKCVTSAGNRIEADYEVTKLAAVIDVLENKFYLPVSRVKIPTASDTGGGTIQAKYLI
                     TENDMQLLLEDPESVVLTRERLALSKLKSRDERCLKRLVSVHGYDEVFRSLQALDVAND
                     SFGRDCG"
                     /name="hypothetical protein"
     gene            1579..1779
                     /locus_tag="AAIM57_RS28825"
                     /old_locus_tag="AAIM57_28825"
     CDS             1579..1779
                     /locus_tag="AAIM57_RS28825"
                     /old_locus_tag="AAIM57_28825"
                     /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_048230212.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAFMFEAYRHIVSDTNQAR
                     RSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(1827..2015)
                     /locus_tag="AAIM57_RS28830"
                     /old_locus_tag="AAIM57_28830"
     CDS             complement(1827..2015)
                     /locus_tag="AAIM57_RS28830"
                     /old_locus_tag="AAIM57_28830"
                     /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_053507524.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDMLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          1201..1374
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.571"
                     /coverage="100.0"
                     /evalue="1.23e-64"
     Typing          complement(732..1277)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.545"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 atgactaaag taactgtcga ttatccttct tctatctccc gccgtaagct ttcaaatctg
       61 ttcaatcact ccccgtttat gttgtctctt gttcatgaca tgtgtgactc tcaagctatt
      121 gttcttgctg ccatgtgtga agggaagtgc gtaacaagtg cggggaaccg gattgaagca
      181 gactacgaag taactaagct ggctgcggtc attgatgttc tggaaaataa gttttacctg
      241 cctgtatcac gcgtgaagat tcccaccgcg tcggatactg gaggtggaac tatccaagct
      301 aaatatctca ttacggaaaa tgatatgcag ctgttgctgg aagatccgga atcagtggtt
      361 ttgacgcgag agagattggc tctttctaag ttaaaaagtc gagatgaacg ttgtttaaaa
      421 cgtttggtgt ccgttcacgg ttatgatgaa gtttttcgat cactacaggc gttagatgta
      481 gctaatgatt cttttggtcg agattgcggg taatgcttta aacggcaatg aattgacgtt
      541 taaagcatgg ccgtttaacg tttgacgtta gaaagaaaaa agccacccgg caaggtggct
      601 ttttcaaggt tcaacaaacg ggcaagtttt tgaaccgggt aactgtcgta agggcgacga
      661 gtcaccaaaa aaagtatctc cagtttagcc gcaatatggc tatcacatca agactcatcc
      721 ctttgcccag ttaccaatgg ccgctgccat tggcgctttg ccgtgtctat ccggattgga
      781 ttcaagtcga aagttaccgg aacaggcgca gcggtcggac tgaacggggg gttcgtgcat
      841 acagtccagc ttggagcgaa ctgccttccc ggaaccgagt gtcaggcgtg gaatgagaaa
      901 ccgcggccat aacagcggag tgacaccggt aaaccgaaag gcaggaacag gagagcgcac
      961 gagggagcca ccagggggaa acgcctggta tctttaagtc ctgtcgggtt tcgccaccac
     1021 tgatttgagc gtcagatttc gtgatgcttg tcaggggggc ggagcctatg gaaaaacggc
     1081 aacgccgtgg ccttgcttct tctttgctaa gtatcgccct ggcatcctcc aggaaatttc
     1141 cgcccagttt gtaagcccac accgctcgcc gcagccgaac gaccgagcgc agcgagtcag
     1201 tgagcgagga agcggaatat ctcctgtctc gtatattctg ctgacgcgcc ggtgctgcct
     1261 ttttcctcct tccacatgaa gcacttcact gacctccgca tccgtgtcga catattaagc
     1321 cagtatacac tccgctagcg ctacgtgact ggttcagggc tgcgccccga cacccgctaa
     1381 aagcactgac gcgcctgcgg cttgcccaac cccgcgccgt ccgggaaaga atttcccgat
     1441 cgacccgacg tttctgttta cctgtgatgt taacgtttgg atctttttcc cgggtttacc
     1501 tattttcttc taatgaagcg ttcacagctg acgttaatag atgggtgctt catgtttggt
     1561 ttttcaccag gagaacttat gaacctttgc cccgatgaac gtctgctctt tgtgcggatg
     1621 atttccgcta tgcttcgccg ttcgggcggt gatgcgggtg cttttatgtt tgaggcgtat
     1681 cgccatattg tgtccgatac caatcaagct cgtcgttcct acatgctcga cctgctcgaa
     1741 agcgtcaggc atgactatgt acacggtgga tatacatagt tgccctggat acgcttttcg
     1801 tctaagtgag cgttcttttc gtctctttat tcgccgtcct gtataccgaa gcgtgcgctc
     1861 agcttctgat aaagcgcttc agcctgttcg tgcattcgct cacagtcggc tgcctcgtca
     1921 tcaagatcga gcatgtcgag tttttcgagc agcagcagcg actgcgcccg gataaatttt
     1981 gccatgttca gtgcggctga ttcctgtttt gtcatacggc tttttcccgg ttttatggtg
     2041 atcgcagact gaaatcttac ttcattcact tgagtgcata gccatgcagg tacgcagaaa
     2101 tcatcagggg cgttttttct cgatatgggc acagaaaggt gtatgtttca ggccggaggc
     2161 ctcagaaacg ccctgagagc ctctgaggcg gtgcgggcaa cggatgttat gttaaaagtt
     2221 actttcccga gcttgtgtcg tagtttcttc ctacgtgatt catcaagtag gaacctgata
     2281 gatcgataca ccagagatcc tcatcgatcc ttctttattt atttaattta ttgttaaaca
     2341 aagactattt gtaaacctat aaactacacc gatcgattgg gatcctttca ataggaaaaa
     2401 acactaaaca atttatatat gctctaaacg gcttcaaact gatttaaacg gctttaaatt
     2461 attggtgaac ctatgactag gtttttgtgt agataatgtc ttaggcagcg tttggtgccg
     2521 tacagtgggg gttttacagg ctgctctcga tgctgctgtt ggtctgatgg ctggtttttt
     2581 aaacactgtt tacgggatcc ctcgttagaa ttactatccc tggcgctggc tgtggtggct
     2641 ggcaattaaa aaacataggc aggtagctgt ggtggctatt tgtcgaagct tgagatggct
     2701 tcttaagaag gtgaaacctt cacaagagaa cccgctaatc gtgaagaggc gggttttttt
     2761 gtgtcaaaaa tcctcgattc atcagcgcat taattgctct tcaatatggt gatcgtgtta
     2821 gaataggcgc aacggcagac cttaccagtt tgcgagcctt accagctcat gccccgttag
     2881 caaataacct taatcttctt cacggaccgc aaggtcaagg tgccaaaatg tgtaatacaa
     2941 tctcgatccc tcatccgggg gatgttagct atatctcctt cacgtgccgc aaggttccgt
     3001 ccgctatctt tagtggcgtg gaggtgaatc
//
