LOCUS       NZ_CP084294             2745 bp    DNA     circular CON 13-NOV-2023
DEFINITION  Citrobacter werkmanii strain LHC5-1 plasmid pLHC5-1-2.7k, complete
            sequence.
ACCESSION   NZ_CP084294
VERSION     NZ_CP084294.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20477956
            Assembly: GCF_020271725.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter werkmanii
  ORGANISM  Citrobacter werkmanii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 2745)
  AUTHORS   Peng,K. and Li,R.
  TITLE     Occurrence and molecular characterization of abundant tet(X)
            variants among diverse bacterial species of chicken origin in
            Jiangsu, China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2745)
  AUTHORS   Peng,K. and Li,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-SEP-2021) College of Veterinary Medicine, Yangzhou
            University, No. 567, wenchang middle road, hanjiang district, yangz,
            yangzhou, jiangsu 225000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/13/2023 04:47:44
            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)                     :: 5,036
            CDSs (total)                      :: 4,913
            Genes (coding)                    :: 4,802
            CDSs (with protein)               :: 4,802
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 111
            CDSs (without protein)            :: 111
            Pseudo Genes (ambiguous residues) :: 0 of 111
            Pseudo Genes (frameshifted)       :: 29 of 111
            Pseudo Genes (incomplete)         :: 73 of 111
            Pseudo Genes (internal stop)      :: 21 of 111
            Pseudo Genes (multiple problems)  :: 13 of 111
            Pseudo Genes (short protein)      :: 1 of 111
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084294.1.
            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..2745
                     /organism="Citrobacter werkmanii"
                     /mol_type="genomic DNA"
                     /strain="LHC5-1"
                     /isolation_source="a feces sample of chicken origin"
                     /db_xref="taxon:67827"
                     /plasmid="pLHC5-1-2.7k"
                     /geo_loc_name="China: Nantong, jiangsu province"
                     /lat_lon="32.39 N 120.56 E"
                     /collection_date="2020-05"
                     /collected_by="College of Veterinary Medicine, Yangzhou
                     University"
     gene            <519..620
                     /locus_tag="LD024_RS23895"
                     /old_locus_tag="LD024_23895"
                     /pseudo=""
     CDS             <519..620
                     /locus_tag="LD024_RS23895"
                     /old_locus_tag="LD024_23895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011847251.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS30 family transposase"
                     /name="IS30 family transposase"
     gene            complement(809..1384)
                     /locus_tag="LD024_RS23900"
                     /old_locus_tag="LD024_23900"
     CDS             complement(809..1384)
                     /locus_tag="LD024_RS23900"
                     /old_locus_tag="LD024_23900"
                     /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_100620424.1"
                     /translation="MFQAGGLRNALRASEAVRATDVMFNLAVRHSYHRTYRPLVVFRTI
                     FICIICILLYYFFKLERWGNNNMNGMSDVRLKKSTIESLKEYVNDFGMTVDDVVLNLIE
                     ENNSLKSLLGQGFSLPGGDKDTHSFKDYVIHKLPKGKILVTKDGLKVSNMKKVLIEAGS
                     AVGMDDKELNPDFTTYEIGRFLFKHLQG"
                     /name="hypothetical protein"
     gene            1512..1700
                     /locus_tag="LD024_RS23905"
                     /old_locus_tag="LD024_23905"
     CDS             1512..1700
                     /locus_tag="LD024_RS23905"
                     /old_locus_tag="LD024_23905"
                     /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_227410537.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDMLDLDDEAADCERMHEQA
                     ETLYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1748..1975)
                     /locus_tag="LD024_RS23910"
                     /old_locus_tag="LD024_23910"
     CDS             complement(1748..1975)
                     /locus_tag="LD024_RS23910"
                     /old_locus_tag="LD024_23910"
                     /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_206282062.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAFMFEAYRH
                     IVSDTNQARRSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     Typing          2..198
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.98"
                     /coverage="93.0"
                     /evalue="1.4900000000000002e-85"
     Typing          2444..2745
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.408"
                     /coverage="94.0"
                     /evalue="1.3699999999999998e-128"
ORIGIN
        1 attccgctgt tatggccgcg tttatctcat tccacgcctg acactcagtt ccgggtaggc
       61 agttcgctcc aagctggact gtatgcacga accccccgtt cagtccgacc gctgcgcctt
      121 gtccggtaac tatcgtcttg agtccaaccc ggaaagacac gacttaacgc cattggcagc
      181 agccattggt aagaggattc acggagcagg gtagtagagt gcttctacag agttcttgaa
      241 gtggcggcct gactgcggct acactggaag gacagttttg gtatctgcgc tccgtgaaag
      301 ccagttacct tcggaagaaa gagttggtag ctcttgattc cggcaaacga accaccgttg
      361 gtagcggtgg tttttttgtt tacaggacat gagattacga cgagagtaaa aggatcacaa
      421 gaagatccgg ctgtttacca gtgatttggc ttcagtattg gtttccgcct agcggggcct
      481 tatacgtaaa aattccacac ctgacttatc acacagggga gctccgcaag taccagagag
      541 cactgaatag caggccacgg aaatgtcttg gattccggca accttcagtg gtctttgctg
      601 agctaagaca ggcggcttag cgttgcactt cgaacttgaa tccgcccaga agcattcagc
      661 agaagtcgct aacggtttgc ttgcaaatgc tatcaataat gctttgccta aagcaggaat
      721 aaaaaagcca cctacacggt ggcttttttt ctgtccggga actagctgaa ttgaacctaa
      781 aatcccggcc acgaactggt agacaccttt atccctgaag atgtttgaag agaaaacggc
      841 ctatttcata ggtcgtaaag tcagggttta gctctttatc atccatccct acagcgctcc
      901 ctgcctcgat caataccttc ttcatgttgc taactttaag cccgtctttg gtaaccaaga
      961 tctttccttt tggaagctta tgaatcacgt aatccttgaa ggaatgtgtg tccttatctc
     1021 caccaggcaa agaaaagccc tgacctaata acgattttaa tgaattattc tcttcaatta
     1081 agttcaggac aacatcatca accgtcatgc caaagtcatt cacgtactct tttaggctct
     1141 caatagttga tttctttagt cttacgtcag acataccatt catattatta ttaccccacc
     1201 gctctaattt gaagaaataa tacaacaaaa tacaaattat acaaataaat attgttctga
     1261 atacaacaag cggtctgtag gtgcgatgat aactatgccg caccgccaga ttgaacataa
     1321 catccgttgc ccgcaccgcc tcagaggctc tcagggcgtt tctgaggcct ccggcctgaa
     1381 acatacacct ttctgtgccc atatcgagaa aaaacgcccc tgatgatttc tgcgtacctg
     1441 catggctatg cactcaagtg aatgaagtaa gatttcagtc tgcgatcacc ataaaaccgg
     1501 gaaaaagccg tatgacaaaa caggaatcag ccgcactgaa catggcaaaa tttatccggg
     1561 cgcagtcgct gctgctgctc gaaaaactcg acatgctcga tcttgatgac gaggcagccg
     1621 actgtgagcg aatgcacgaa caggctgaaa cgctttatca gaagctgagc gcacgcttcg
     1681 gtatacagga cggcgaataa agagacgaaa agaacgctca cttagacgaa aagcgtatcc
     1741 agggcaacta tgtatatcca ccgtgtacat agtcatgcct gacgctttcg agcaggtcga
     1801 gcatgtagga acgacgagct tgattggtat cggacacaat atggcgatac gcctcaaaca
     1861 taaaagcacc cgcatcaccg cccgaacggc gaagcatagc ggaaatcatc cgcacaaaga
     1921 gcagacgttc atcggggcaa aggttcataa gttctcctgg tgaaaaacca aacatgaagc
     1981 acccatctat taacgtcagc tgtgaacgct tcattagaag aaaataggta aacccgggaa
     2041 aaagatccaa acgttaacat cacaggtaaa cagaaacgtc gggtcgatcg ggaaattctt
     2101 tcccggacgg cgcggggttg ggcaagccgc aggcgcgtca gtgcttttag cgggtgtcgg
     2161 ggcgcagccc tgaaccagtc acgtagcgct agcggagtgt atactggcta aacttcagag
     2221 atgccaagga agggacagga tatgttttgt agcaccgcca ccacggtggc gatactccaa
     2281 aacgcctggt cagggcacag ccccgacacc ccagagccga ctgtaggtca ctggacgaac
     2341 gcggcggaat gatgtcggat gacgtcattt tgcggcgttt gccctatcct gcatcgtatt
     2401 aaaaaatgca gctatggcgc gtacggtgcc aaagataagc ccggagatat tccgcttcct
     2461 cgctcactga ctcgctccgc tcggtcgttc ggctgcggcg agcggtaccg gcttactggc
     2521 ggggcggaaa tttcctggca tcttccagga agaagcttaa cagggaagca agaaggccac
     2581 ggcgaagccg tttttccata ggctccgccc ccctgacaag catcacgaaa tctgacgctc
     2641 aaatcagtgg tggcgaaacc cgacaggact taaagatacc aggcgtttcc ccctggtggc
     2701 tccctcgtgc gctctcctgt tcctgccttt cggtttaccg gtgtc
//
