LOCUS       NZ_CP141653             2155 bp    DNA     circular CON 17-JAN-2024
DEFINITION  Citrobacter freundii strain NFYY328 plasmid pNFYY328-8, complete
            sequence.
ACCESSION   NZ_CP141653
VERSION     NZ_CP141653.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38983828
            Assembly: GCF_035620115.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 2155)
  AUTHORS   Chen,J., Li,W. and Li,X.
  TITLE     Whole-genome sequencing of Citrobacter freundii strain NFYY328
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2155)
  AUTHORS   Chen,J., Li,W. and Li,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-DEC-2023) Zhuhai hospital, Jinan University, 79
            Kangning Road, Zhuhai, Guangdong 519000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Hifiasm v. version 0.13-r308; Canu v. version 1.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 72.77x
            Sequencing Technology             :: Illumina; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/13/2024 23:32:11
            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)                     :: 5,701
            CDSs (total)                      :: 5,580
            Genes (coding)                    :: 5,410
            CDSs (with protein)               :: 5,410
            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)              :: 170
            CDSs (without protein)            :: 170
            Pseudo Genes (ambiguous residues) :: 0 of 170
            Pseudo Genes (frameshifted)       :: 48 of 170
            Pseudo Genes (incomplete)         :: 133 of 170
            Pseudo Genes (internal stop)      :: 25 of 170
            Pseudo Genes (multiple problems)  :: 34 of 170
            Pseudo Genes (short protein)      :: 1 of 170
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP141653.1.
            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..2155
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="NFYY328"
                     /isolation_source="cerebrospinal fluid"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pNFYY328-8"
                     /geo_loc_name="China: Guangzhou"
                     /lat_lon="23.19 N 113.33 E"
                     /collection_date="2023"
                     /collected_by="Jing Chen"
     gene            70..372
                     /locus_tag="U9I37_RS28490"
                     /old_locus_tag="U9I37_28490"
     CDS             70..372
                     /locus_tag="U9I37_RS28490"
                     /old_locus_tag="U9I37_28490"
                     /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            627..815
                     /locus_tag="U9I37_RS28495"
                     /old_locus_tag="U9I37_28495"
     CDS             627..815
                     /locus_tag="U9I37_RS28495"
                     /old_locus_tag="U9I37_28495"
                     /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(863..1090)
                     /locus_tag="U9I37_RS28500"
                     /old_locus_tag="U9I37_28500"
     CDS             complement(863..1090)
                     /locus_tag="U9I37_RS28500"
                     /old_locus_tag="U9I37_28500"
                     /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_224019247.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            1804..1917
                     /locus_tag="U9I37_RS28505"
                     /old_locus_tag="U9I37_28505"
     CDS             1804..1917
                     /locus_tag="U9I37_RS28505"
                     /old_locus_tag="U9I37_28505"
                     /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"
     Typing          complement(1270..1442)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.954"
                     /coverage="100.0"
                     /evalue="2.04e-62"
     Typing          1367..1913
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.625"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 taggatgcat atcgttataa aacatcggat attatgcatc ccaactaaaa ataagctcga
       61 ggataaaaaa tgagttcaat ggtttactgc cgaggatgcg gcaaggaaat acacgaaaca
      121 gcaaagtcat gcccacactg cggagccaca aacgcctctt caggttcagg tgaaaaaagt
      181 agaatcgcag ccgcgctatt agcattcttc cttggtggat ttggcgtaca taaattttac
      241 ttaggtaaaa taggacaggg attcctgtat ctaatttttt gctggacatt catacccgcg
      301 atcatcgcgt ttattgagtt tattatttat ctatgcgatt ccgatgaaaa attcgcaaga
      361 aaatatggct aactcatagc aaaaaagccc tgcggggctt tttttgtacc agtctgtgag
      421 gcagatttac cataacatcc gttgcccgca ccgcctgaga cgccctcagc gcgtttctga
      481 ggactccggc ctgaaacata cacctttctg tgcccatatc gagaaaaaac gcccctgatg
      541 atttctgcgt acctgcatgg ctatgcactc aagtgaatga agtaagattt cagtctgcga
      601 tcaccataaa accgggaaaa agccgtatga caaaacagga atcagccgca ctgaacatgg
      661 caaaatttat ccgggcgcag tcgctgctgc tgctcgaaaa actcgacgtg ctcgatcttg
      721 atgacgaggc agccgactgt gagcgaatgc acgaacaggc agaagcgctt tatcagaagc
      781 tgagcgcacg cttcggtata caggacggcg aataaagaga cgaaaagaac gctcacttag
      841 acgaaaagcg tatccagggc aactatgtat atccaccgtg tacatagtca tgcctgacgc
      901 tttcgagcag gtcgagcatg taggaacgac gagcttgatt ggtatcggac acaatatggc
      961 gatacgcctc aaacataaca gcacccgcat caccgcccga acggcgaagc atagcggaaa
     1021 tcatccgcac aaagagcaga cgttcatcgg ggcaaaggtt cataagttct cctggtgaaa
     1081 aaccaaacat gaaagcaccc atctattaac gtcagctgtg aacgcttcat tagaagaaaa
     1141 taggtaaacc cgggaaaaag atccaaacgt taacatcaca ggtaaacaga aacgtcgggt
     1201 cgatcgggaa attctttccc ggacggcgcg gggttgggca agccgcaggc gcgtcagtgc
     1261 ttttagcggg tgtcggggcg cagccctgaa ccagtcacgt agcgctagcg gagtgtatac
     1321 tggcttacta tgtaggcacg ggtgcgggaa tcagtgaagt gcttcatgtg gcaggaggaa
     1381 aatgcagcag cagagcgtaa gcggaatata tgagacagga gatattccgc ttcctcgctc
     1441 actgactcgc tgcgctcggt cgttcggctg cggcgagcgg tgcgggctta cgaatggggc
     1501 ggaaatctcc tgggagatgc caggaagaaa cttaacaggg aaacgataag gccgcggcga
     1561 agccgttttt ccataggctc cgcccccctg acaagcatca cgaaatctga cgctcaaatc
     1621 agtggcggcg aaacccgaca ggactataaa gatcccaggc gtttccccct ggtagctccc
     1681 tcgtgcgctc tcctgttcct gcctttcggt ttaccggtgt cattccgctg ttatggccgc
     1741 gtttatctca ttccacgcct gacactcagt tccgggaagg cagttcgctc caagctggac
     1801 tgtatgcacg aaccccccgt tcagtccgac tgctgcgcct tttccggtaa ctatcaactt
     1861 gagtccaacc cggaaagaca cgacaaagcg ccactggcag cagccactgg taactgattt
     1921 agaggagtta gtcttgaagt tatgcgcctg ttaaggctaa actgaaagaa cagatttggt
     1981 tcctgcgctc ctcgtaagcc agttaccacg gttcaaagag ttgctgctct gagaaccttc
     2041 gaaaaaccgc cttgctgggc ggttttttcg tttacagagc aagagattac gacgctacag
     2101 aaaggatctc aagaagatcc ttcaccataa tggaaatcta tcccacccga gcata
//
