LOCUS       NZ_CP054133             2959 bp    DNA     circular CON 28-JAN-2024
DEFINITION  Citrobacter portucalensis strain BY9F36 plasmid pHNBYF36-4, complete
            sequence.
ACCESSION   NZ_CP054133
VERSION     NZ_CP054133.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15062844
            Assembly: GCF_021496985.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter portucalensis
  ORGANISM  Citrobacter portucalensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 2959)
  AUTHORS   Lv,L., Gao,X., Zhang,Q. and Liu,J.-H.
  TITLE     CRE isolated from fish samples
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2959)
  AUTHORS   Lv,L., Gao,X., Zhang,Q. and Liu,J.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-MAY-2020) College of Veterinary Medicine; National
            Risk Assessment Laboratory for Antimicrobial Resistant of
            Microorganisms in Animals, Guangdong Provincial Key Laboratory of
            Veterinary Pharmaceutics Development and Safety Evaluation, South
            China Agricultural University, NO. 483, Wushan Road, Tianhe
            District, Guangzhou, Guangdong 510642, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 11-MAY-2020
            Assembly Method :: SPAdes v. MAY-2020; Unicycler v. MAR-2020
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/28/2024 03:26:05
            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)                     :: 4,845
            CDSs (total)                      :: 4,724
            Genes (coding)                    :: 4,658
            CDSs (with protein)               :: 4,658
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 66
            CDSs (without protein)            :: 66
            Pseudo Genes (ambiguous residues) :: 0 of 66
            Pseudo Genes (frameshifted)       :: 21 of 66
            Pseudo Genes (incomplete)         :: 37 of 66
            Pseudo Genes (internal stop)      :: 19 of 66
            Pseudo Genes (multiple problems)  :: 11 of 66
            Pseudo Genes (short protein)      :: 1 of 66
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP054133.1.
            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..2959
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="BY9F36"
                     /isolation_source="feces"
                     /host="Fish"
                     /db_xref="taxon:1639133"
                     /plasmid="pHNBYF36-4"
                     /geo_loc_name="China: Guangzhou"
                     /collection_date="2019-01-08"
     gene            complement(join(2939..2959,1..435))
                     /locus_tag="HRV88_RS24200"
                     /old_locus_tag="HRV88_24130"
     CDS             complement(join(2939..2959,1..435))
                     /locus_tag="HRV88_RS24200"
                     /old_locus_tag="HRV88_24130"
                     /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_061350436.1"
                     /translation="MTTKFNKFELHSAFRDGKLNEKHFVDLPYLKEEQLRALASFLGAI
                     TREEPLPGKNKPSWLDDDSIKISGTDAYEDGNYWHYHCGPYPESVKLRSMTFNLGMNVA
                     GLTSAEVIHYQKLNDGTVFVVGFSPTHEPFPKSDAPHYNPLFTESDD"
                     /name="hypothetical protein"
     gene            832..1410
                     /locus_tag="HRV88_RS24205"
                     /old_locus_tag="HRV88_24135"
     CDS             832..1410
                     /locus_tag="HRV88_RS24205"
                     /old_locus_tag="HRV88_24135"
                     /inference="COORDINATES: protein motif:HMM:NF025107.4"
                     /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_123906182.1"
                     /translation="MKSEIELKKTEHLSVEIPERILAIWGRSILNSGWTSVPNELLKNQ
                     SKLGIGNTELVLLINLISFMHHSDARVYPSISLLCERMNQDRRTIQRNLNKLVEMDILR
                     IKIRSTGKNSKGMTNLYDLTPLMLKLINLKIPSLNTPDEKHTCPKCGKIAISREEITKE
                     FGFRTDTNGKMRTQSWCKDCRGKKVADLP"
                     /name="helix-turn-helix domain-containing protein"
     Typing          2224..2717
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.237"
                     /coverage="96.0"
                     /evalue="2.76e-175"
ORIGIN
        1 gagagggttg taatgcggcg catcagactt agggaagggc tcatgtgtag gggagaagcc
       61 tacgacaaac accgtgccat cgttgagttt ttgatagtgg atcacttctg cggaggttag
      121 tccagcaacg ttcataccca agttaaaagt catcgatcta agtttgaccg attctggata
      181 tggaccgcaa tgataatgcc agtagttccc gtcttcgtaa gcatcagtac cggaaatttt
      241 aatggaatca tcatcaagcc atgaaggctt gtttttccct ggaagaggct cttcacgagt
      301 tatcgcaccc aagaaagagg ctaatgcccg gagttgttct tctttgaggt agggtaaatc
      361 tacgaaatgc ttttcattca gcttcccgtc tcggaaagct gaatgaagct caaacttatt
      421 gaatttggtt gtcatcaaac actttccact taccttactg agtaagcaga tagcatatca
      481 aagatcgatt catcagactt cggagaatcg cattttaacg cttcatgcgt ctgattcttg
      541 tatgaacgcg agagcagcac ttcgtcagca cgagatttgt actgctgacg acgttctgta
      601 tcgcagctgt gattatcaaa tcgtacgttt gccaacatgt cagtcctatg tttgaagaaa
      661 tctgggaaga taaaatcttg ctcaattcga tggtaagaga ggtctttccc cggtgctaga
      721 cattaggcct ttttggtcaa atacaagggc ggcattgatg ccgcccgaat aattaatcat
      781 aataacaata cctatatata taggtattgt tattatgatt ggtggccgaa gttgaaatca
      841 gaaatcgaac taaaaaaaac agaacactta tcagtagaga tccccgaaag aatcttagcc
      901 atatgggggc gcagcatttt aaactctggc tggacgtccg ttcccaatga actattaaaa
      961 aaccaatcta agctaggaat aggaaacaca gagcttgtac ttttgattaa cctgatctct
     1021 ttcatgcatc attctgacgc aagagtgtac ccatcaattt cgcttctatg cgaaagaatg
     1081 aatcaagaca gacgaacaat tcagagaaat ttaaacaagt tagtagaaat ggacattctg
     1141 aggataaaaa tacgttccac cggtaaaaac tccaaaggaa tgactaactt gtatgacctc
     1201 acccctttaa tgctgaagct aatcaaccta aaaataccat ctttaaatac gcccgatgaa
     1261 aaacatacgt gtccaaaatg cgggaaaata gccatatcaa gagaagaaat aacaaaagag
     1321 tttggattca gaactgacac taatgggaag atgagaacgc aaagttggtg caaagattgt
     1381 cgaggcaaga aagttgcgga tttaccataa catccgttgg ccgcaccccc tcagacgccc
     1441 tcagcgcatt tctgcggcgg gatgactgtt tccggcactt ccctatacct atatcgtgaa
     1501 aaaacgcgcc tgatgatttc tgcgagtctg catggctatg cacacacatg catggccggg
     1561 attttagcgg ctaaaatccg gcaggacgtc caaaagcacc acttaacctc acgaataacg
     1621 cctcacgggt gcgcagttta ctgtgcggcc gtgaggcgtt ggccaggccg tcaggcatgg
     1681 ctggatttat tgctaagggg gtcggattta acgtggatta atcagcacgc agtgatgaac
     1741 gggattcgga aggggcaccc ttgcggcgcg gcgatgtata catcgctaac gtgccttgga
     1801 catgcagagt aaatcagtga gaaaacaggc tataaacact gagcaaacag attcgggaca
     1861 ggttgcaaac acttcctaaa cagattcggg acagattgca aacacttcct aaacagattc
     1921 gggacagatt gcaaacactt cctaaacagg ttcgggacag attgcaaaca ctgattgcta
     1981 agggtatcgg gcagagcatg gtcatagcgt tttggagtat gggcggtact ccaaaaacac
     2041 atcttgtccc gctgttttgt agcgctgaca aactggcggt gaacacaaaa catatcctgt
     2101 catctgcttt aactgttgta atccagaagt atcaggtgac gtcactttac ggcgttagcc
     2161 ctatcctgca tcgcattaaa aatgcagcta tggcgtgtac ggtgccaaag ataagtacga
     2221 agatattccg cttcctcgct cactgactcg ctgcgctcgg tcgttcggct gcggcgagcg
     2281 gagggaacag gcacatcaaa agatgaagcc atgagggacg atgaggggga aaaaaacgcc
     2341 gcggcgttgc cgattttcca taggctccgc ccccctgaca agcatcacag aatctgacgc
     2401 tcaaatcagt ggtggcgaaa cccgacagga cttaaagata ccaggcgttt ccccctggtg
     2461 gctccctcgt gcgctctcct gttcctgcct ttcggtttac cggtgtcatt ccgctgttat
     2521 ggccgcgttt atctcattcc acgcctgaca ctcgattccg ggaaggcagt tcgctccaag
     2581 ctggactgta tgcacgaacc ccccgttcag tccgactgct gcgccttttc cggtaactat
     2641 caacttgagt ccaacccgga aagacacgac aaagcgccac tggcagcagc cactggtaaa
     2701 caggatgtgc gagagatgta tcgagagttc ttgaagtggt ggcctgactg cggctacact
     2761 gaaaggacag atttggtgac atgtctcgca caagactgtt accacggtta gagaatctgc
     2821 caggattaac taaccttcga aaaaccacct gccagggtgg ttttttcgtt tcaggaaaag
     2881 agactacagc tgagagaaaa aaatctcaac atatccttac cagccactat tcagatattt
     2941 aatcatctga ttcggtgaa
//
