LOCUS       NZ_CP137169             3665 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Citrobacter portucalensis strain F621 plasmid pF621-3, complete
            sequence.
ACCESSION   NZ_CP137169
VERSION     NZ_CP137169.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37878022
            Assembly: GCF_036289065.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter portucalensis
  ORGANISM  Citrobacter portucalensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 3665)
  AUTHORS   Li,X.
  TITLE     Citrobacter portucalensis F621 Genome sequencing and assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3665)
  AUTHORS   Li,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-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 01:55:05
            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)                     :: 4,850
            CDSs (total)                      :: 4,735
            Genes (coding)                    :: 4,622
            CDSs (with protein)               :: 4,622
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 113
            CDSs (without protein)            :: 113
            Pseudo Genes (ambiguous residues) :: 0 of 113
            Pseudo Genes (frameshifted)       :: 42 of 113
            Pseudo Genes (incomplete)         :: 73 of 113
            Pseudo Genes (internal stop)      :: 20 of 113
            Pseudo Genes (multiple problems)  :: 19 of 113
            Pseudo Genes (short protein)      :: 1 of 113
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137169.1.
            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..3665
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="F621"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:1639133"
                     /plasmid="pF621-3"
                     /geo_loc_name="China: Hangzhou"
                     /lat_lon="29.86 N 121.56 E"
                     /collection_date="2021-06-28"
                     /collected_by="Jiayao Yao"
     gene            join(3390..3665,1..9)
                     /locus_tag="R2X24_RS00005"
                     /old_locus_tag="R2X24_00005"
     CDS             join(3390..3665,1..9)
                     /locus_tag="R2X24_RS00005"
                     /old_locus_tag="R2X24_00005"
                     /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="DUF1778 domain-containing protein"
                     /protein_id="WP_123652873.1"
                     /translation="MNAVRKERFEFRLPEAAKRRIEEAAVISKVSVSQFVMESATFRAE
                     TVINEHRRLIVEEDVWEQVMAALERPPAATQSMCKAFERYNSEESWICD"
                     /name="DUF1778 domain-containing protein"
     gene            join(3665,1..530)
                     /locus_tag="R2X24_RS00010"
                     /old_locus_tag="R2X24_00010"
     CDS             join(3665,1..530)
                     /locus_tag="R2X24_RS00010"
                     /old_locus_tag="R2X24_00010"
                     /EC_number="2.3.1.-"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0016747 - acyltransferase activity,
                     transferring groups other than amino-acyl groups [Evidence
                     IEA]; GO:0008080 - N-acetyltransferase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="GNAT family N-acetyltransferase"
                     /protein_id="WP_275163426.1"
                     /translation="MRLIPGFQPFDLCAEYNMANFSCGVTHLDEFLKTGLHKMQGRSLL
                     KGYVLLSDDETPEIMGYYTLSGASFERGHLSNRLRKKIPYSNMPAVLLGRLAIDQRIQR
                     KGFGELLIVDAIHKVRATAGQIGIYAMFVEAHPGASSFYTRMGFIPSSMADDNKTFFYP
                     ANQFDDLISGDKC"
                     /name="GNAT family N-acetyltransferase"
     gene            complement(723..835)
                     /locus_tag="R2X24_RS00015"
                     /old_locus_tag="R2X24_00015"
                     /pseudo=""
     CDS             complement(723..835)
                     /locus_tag="R2X24_RS00015"
                     /old_locus_tag="R2X24_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            1248..1439
                     /locus_tag="R2X24_RS00020"
                     /old_locus_tag="R2X24_00020"
     CDS             1248..1439
                     /locus_tag="R2X24_RS00020"
                     /old_locus_tag="R2X24_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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_196015241.1"
                     /translation="MSKKYKTALNMAKFIQAQSLLLLEKLNELDLDTEADLCEALHEDA
                     EHLFRSLTTRIDGLQETY"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1439..1846
                     /locus_tag="R2X24_RS00025"
                     /old_locus_tag="R2X24_00025"
     CDS             1439..1846
                     /locus_tag="R2X24_RS00025"
                     /old_locus_tag="R2X24_00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014440114.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_213786542.1"
                     /translation="MAQVSISEAARLTGKSRTTLHRLIKAGELSTCHGERNAKMLDTSE
                     LLRVFGALRGLPDEQVVEQVNGQRVTASLSENEQVVRALKQEVEHLKSLVSAQHSHIDS
                     LKQAMQLLEHKQSVSDPQNVPAKPWWQFWKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2509..2754)
                     /locus_tag="R2X24_RS00030"
                     /old_locus_tag="R2X24_00030"
     CDS             complement(2509..2754)
                     /locus_tag="R2X24_RS00030"
                     /old_locus_tag="R2X24_00030"
                     /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_163219960.1"
                     /translation="MKKWLTEFFDDMRYIWGEFVREVNSATTDDDTDALDAPGAEYSAE
                     WHATPDFDPQKAINNIDNVYTHDTLHAHIYGHDYDH"
                     /name="hypothetical protein"
     Typing          complement(720..1071)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.521"
                     /coverage="82.0"
                     /evalue="5.01e-147"
ORIGIN
        1 tgcgattaat ccctggtttt caaccttttg atttgtgtgc tgaatacaac atggcgaact
       61 ttagctgtgg agtcacacat ttagatgagt ttttgaaaac cggtctccac aaaatgcagg
      121 ggcgtagcct attaaagggc tacgttctgc tttctgatga tgaaactcca gaaatcatgg
      181 ggtactacac gctgagcggg gcatcattcg aacgagggca tttgagtaac cgcctgagga
      241 agaaaattcc ttactcgaac atgccggcag tgctgttagg tcgtcttgct atcgatcaac
      301 gaattcaacg aaaaggtttt ggtgagttac taattgttga tgctatccat aaggtgaggg
      361 ctactgctgg acagattggt atctatgcca tgtttgttga ggcgcatcct ggagcttcgt
      421 ctttttacac aagaatgggc ttcattccat catcaatggc tgatgataat aaaacatttt
      481 tctaccctgc taatcagttt gatgatctta tctctggcga taaatgctag agtactttca
      541 catatgtctt tgagacatat gtgaaagtaa aaaaaaacca cccggcaagg tggctttttt
      601 aaggttagtg aaccggcaag ttcactaaac caaggtaact ggctaaagag gagctagtca
      661 ccaaatcagt cctttcagtt tagccttaac cggtgcataa cttcaagact aactcctcta
      721 aatcagttac cagtggctgc tgccagtggc gttttgtcgt gtcttttcgg gttggactca
      781 agtgatagtt accgaataag acgtagcagt cggactgaac ggggggttcg tgcatacagt
      841 ccagcttgga gcgaactgcc tacccggagc tgagtgtcag gcgtggaatg agaaaccgcg
      901 gccataacag cggaatgaca ccggtaaacc gaaaggcagg aacaggagag cgcacgaggg
      961 agccgccagg gggaaacgcc tggtatcttt atagtcctgt cgggtttcgc caccactgaa
     1021 ttgagcgtct gattatgtga tgcttgtcag gggggcgaag cctatggaaa aacgccccgt
     1081 tgggcgtggc cttatcgctc ctgtcctgtc ttttggttac gcttactacc aaccttgttt
     1141 atcacttaga aagacccatc cgctcgccgc agacaagtga ccgagcgtag cgagcgaacg
     1201 gtcgaggaag cggaaaagaa ccgcatgtta cgtggagcac ttacgcattg agcaaaaaat
     1261 ataaaacggc actgaacatg gctaaattca ttcaggcgca atctctgctt ttgcttgaga
     1321 agctcaacga attggacctc gatactgagg ccgacttgtg cgaagcatta catgaggatg
     1381 cggaacacct ttttcgtagc ctcacgacac ggattgatgg tcttcaggag acgtactaat
     1441 ggctcaggta tctatcagtg aagcagctcg tcttaccggg aaaagtcgta ccacgctgca
     1501 caggttgatt aaagcaggtg agttgtccac ctgtcacggc gaacgaaatg caaaaatgtt
     1561 agatacatca gagttattgc gtgtatttgg tgcgttgcgt ggtcttcctg atgaacaggt
     1621 tgttgaacag gtaaatggac agcgtgttac agcatcattg tctgagaatg aacaggtggt
     1681 cagggcgtta aaacaggaag ttgaacacct gaaatcgctg gtctctgctc agcattctca
     1741 tatcgatagt ctgaaacagg cgatgcagct cctggaacat aaacagagcg tttctgaccc
     1801 gcagaatgtt cctgcaaagc catggtggca gttctggaag agctgatttt cctgaaagcc
     1861 agtcttttca gtacgatttt ttgcatgcaa aaaatctgtt taccctgtca gggttgcacc
     1921 ccgacacccg ccagcgcctc acagccacgc aataaattgc gtgcccgttc accgcttatg
     1981 tttcctgtct gatcgataag tcttctggtg gctgaaaacg accagaaaat cgtgtcacac
     2041 ctgacgcact atacagtact gctccgaaag ccttgtgctg caaggctttc gggcgctaca
     2101 cccccactgt ctgaagtgta gcgaaaagcc cctaaaaacg cagttatctc attgttttat
     2161 atggaataaa aagtgtagcg ctcatcgcta cactttttat cttaaacttc gctttaattg
     2221 catgttttat aatgtttttc tttgagtttg gggtgtagcg cggatgcagt ttatttggat
     2281 ggatgcttgt ttcaggtctg cggcttttta agcgtaaatt ctggatgtga tccgggctat
     2341 tttttcgcgg ggtgtcctgt tcccgagtcc gaaggcttta tcccctcgat gaatcgcgct
     2401 tgatcttcta ttacatcggg tcgctcgacc aggaagtcgg gggatgcttt tttcgtgctg
     2461 gccaggtcgc gccacaggac tcttttcctg ggtgcttttg catgatgttc agtggtcata
     2521 gtcgtggcca tagatgtgcg cgtgaagggt atcgtgggta tacacgttat caatgttgtt
     2581 tatcgccttt tgcggatcaa aatccggcgt tgcgtgccac tctgccgagt attccgcacc
     2641 gggcgcatcc agagcatccg tatcgtcatc tgtcgtggcg ctgtttactt cgcggacgaa
     2701 ttcaccccag atataacgca tatcgtcgaa aaattcggtg agccactttt tcatatcgtg
     2761 tcctggttgc gctgtgtgta catcaacgag tgtagctacc gggagaagat acaccggaaa
     2821 gggataaaaa tgcctgattg atggaatttt ccgtccgtaa cgtggtgtca gtcattggcg
     2881 tgcataacga ttcacgcctg taaaacgcac cagcgcgatt ctggggcgtt ttcaggaggg
     2941 aagatatgtg gttttgcggc ttcggcagga aaatcgcgta cagcccgtct gagcggtgcg
     3001 cgtaatgacg cgttatggta aatctggttc aatggctggt tttgcagtga gagtgtgaat
     3061 tggttcatgt gtttgttcaa aatagctata gatttatatg caaaaaaatg gtaaaatcaa
     3121 ctggcaatga cacttagaga gagaggcgag acctttaggt ctcgcctctc tctctaagtg
     3181 tcattgccat gtttaagtca ttgtttttta aggttatttt tctttggttt gagttttttt
     3241 ctcaaaaatc accatccccc ccctccatta acttgactag catagtttct cagatcaaaa
     3301 tcacctcaaa ttacctgtac ggtaaattcc cgtaccgtgc atatcgttat gtggtataaa
     3361 ccactgtgag cattagctca ggagttgtta tgaacgcagt aagaaaggag cggttcgagt
     3421 ttcgtctgcc cgaagctgcg aagcgccgta tcgaagaagc tgctgttatt tctaaagtgt
     3481 ccgtatctca atttgtaatg gagtctgcga cttttagagc tgaaacagtt attaatgaac
     3541 atcgccgctt gatcgttgaa gaggatgttt gggagcaagt catggctgcc cttgaacgcc
     3601 ctccagcagc aacacaaagt atgtgtaaag cgtttgagcg ttataactct gaggagagtt
     3661 ggatt
//
