LOCUS       NZ_CP084293             3174 bp    DNA     circular CON 13-NOV-2023
DEFINITION  Citrobacter werkmanii strain LHC5-1 plasmid pLHC5-1-3k, complete
            sequence.
ACCESSION   NZ_CP084293
VERSION     NZ_CP084293.1
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 3174)
  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  JOURNAL   Unpublished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 3174)
  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
            CP084293.1.
            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..3174
                     /organism="Citrobacter werkmanii"
                     /mol_type="genomic DNA"
                     /strain="LHC5-1"
                     /isolation_source="a feces sample of chicken origin"
                     /db_xref="taxon:67827"
                     /plasmid="pLHC5-1-3k"
                     /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            complement(join(2939..3174,1..160))
                     /locus_tag="LD024_RS23880"
                     /old_locus_tag="LD024_23880"
     CDS             complement(join(2939..3174,1..160))
                     /locus_tag="LD024_RS23880"
                     /old_locus_tag="LD024_23880"
                     /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_001222910.1"
                     /translation="MRISNIDWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNELQAQENARKQANQKRMEGKTQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELRYPKDNILQKLKAIRLDLETSPDHH"
                     /name="hypothetical protein"
     gene            340..1293
                     /locus_tag="LD024_RS23885"
                     /old_locus_tag="LD024_23885"
     CDS             340..1293
                     /locus_tag="LD024_RS23885"
                     /old_locus_tag="LD024_23885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235474.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001360358.1"
                     /translation="MATYHLNVKFGGKGQAGNHADYIERKGEYEKRKDLEYSEHGNMPG
                     WARDNPSHFWQAADQFERANGSTYREIEIALPRELTPDQRIELVQDFVRQVAGERHAYS
                     FAIHNPKASIDGGEQPHAHIMMSQRINDGMERSPEQYFRRYNAKNPERGGAKKDSGNLT
                     PTQQKEQLRTLRASWSALQNEHLARHGHRVRVDHRSLEERGIKRTPERHFGFAASSRLD
                     HAQRREILQNRAQPLEHFLEKAHSVRHQFDAQVQQKELVKTLLQDVARERGHALTARIN
                     KTGEVEFERAPTRTRSNTRGHGMGIRDNSRGYDYER"
                     /name="MobA/MobL family protein"
     gene            1305..1835
                     /locus_tag="LD024_RS23890"
                     /old_locus_tag="LD024_23890"
     CDS             1305..1835
                     /locus_tag="LD024_RS23890"
                     /old_locus_tag="LD024_23890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000168768.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168766.1"
                     /translation="MASTEEGLLTLLLSVEHLKNTAIEQQKAVADTLAVARETLRGYRD
                     ISDSVVKQVSDEVRKGVQKTDIAGLMGERMTQDFQRLEETVAKMRANAEALNKDIATIH
                     HNVVKEYNTLNKYSLKWFIGVTVSFLVMFSLLGWFTKTLIDRNYTATEVVYQKIVDIEK
                     KLDKPATGKSRKN"
                     /name="hypothetical protein"
     Typing          341..1290
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.685"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctgcggttgc caggacgtgg agtagtttgc gctcctgttc tgttagtccg gcttcgttat
       61 cgagcaggtc aatgatctgc ctctgtcgtg cggtctgttc tccgagcttc ctgataaagc
      121 cgattcgttt cttcaaccag tcgatgttgc tgatgcgcat gtttgggatg ctccctggtg
      181 ttttttgcgg tgtgttgggg ttgtgcagta tatcgcttgc ggtgggtggg tgcagggggg
      241 tatcttccgt gctaattcgt aaaattagca ggaagcgcac ttatatgttt cttcgccgtt
      301 ggctcagaaa catgtgcgct cctgcggagg gctaacaccg tggcaaccta tcacctcaat
      361 gtaaaatttg gcggcaaggg acaggccgga aaccatgccg attacatcga acgcaaaggc
      421 gagtacgaga aacgaaaaga tctggaatac tcagagcacg ggaatatgcc aggctgggcg
      481 cgagataatc cctcccattt ctggcaagcg gctgatcagt ttgaacgtgc gaatggttcg
      541 acttatcggg agatcgaaat cgccttgccg cgtgaactga caccggatca gcgcattgaa
      601 ctggtgcagg attttgtgcg tcaggtagct ggagaacggc acgcctatag ctttgccatt
      661 cacaatccaa aagcgagcat tgacggaggg gaacagcctc atgcgcatat catgatgagc
      721 cagcgtatta acgatggtat ggaacgttcg ccggaacagt atttccggcg ttataacgcc
      781 aagaatcccg aacggggagg cgcaaaaaaa gattcaggca atctgacacc gactcagcaa
      841 aaagagcaat tgcggacgtt acgggcgagc tggtcagcgt tacagaacga gcatttagcg
      901 cgtcatggtc acagggtgcg cgttgaccat cgctcactgg aagaacgcgg aattaaacgc
      961 acgccagaac ggcatttcgg atttgccgcc tcatcacggc ttgatcatgc gcagcgccgc
     1021 gaaatcctgc aaaaccgagc gcagccgctc gaacattttc tagagaaagc gcattcggtt
     1081 cgccatcaat ttgatgcaca agttcagcaa aaagagttag ttaaaacgct tttacaggac
     1141 gtcgcacggg agcgagggca cgcgcttacg gcaagaataa ataaaacagg tgaagttgaa
     1201 tttgaacgtg cgccaacgcg gacgcggagt aacacgcgag ggcacggcat gggcattcgt
     1261 gacaactcac gcgggtacga ctacgaacgt taaaagggga ctgtatggcg agtacagaag
     1321 aggggttgct cacgctcttg ttgtccgttg agcatttgaa aaacactgcg atagaacaac
     1381 agaaagcggt tgcagacacg ctggcggtcg caagggaaac actgcggggg tatcgggata
     1441 tttctgacag tgttgtaaaa caggttagcg atgaagtcag aaaaggggta cagaaaacgg
     1501 acattgcggg gctgatgggt gagcgcatga cccaggattt tcagcgtctt gaagagactg
     1561 tggcaaagat gagagccaac gcggaggcgc ttaacaagga cattgcgaca attcatcaca
     1621 atgttgttaa agaatacaac acgctcaata aatacagtct gaaatggttt atcggtgtta
     1681 cggtcagttt tctggtcatg ttctcgttgc ttggctggtt taccaaaacg ttgatcgaca
     1741 ggaactacac cgcgacggag gtcgtgtatc agaaaattgt tgatattgaa aagaaactgg
     1801 acaaaccagc aacagggaag agccggaaaa actgacgcgc ttcgcttgtc caacgcctca
     1861 cgggacgcga aaaaattccg cgtcccgttc accgttttct gatgagaaag tttgccgttt
     1921 tgacccgttc ggtgctcaga tttggcgaaa ttgattccga atcacttttg tgaatagtta
     1981 tgcaagcccc tggaaacgtt tctgacgcgt tttttgaggt aggggtgggg gaaagcatgg
     2041 ttttttgatg ttttgagcgt aaaagcgtga aaaatcgcgt tattgtgctt gcgatctttc
     2101 gtcagggagc gtagaacgaa aaaagcccgc cgttaggcga gcttcttcgg gttcattgag
     2161 gttttcgacc tcctcaatgt tcctgtggag tctgttgcgg tgacaacgga aaccagttca
     2221 ttcagtttgc atgaaccttc tgtattcttc aagcattacc gaccgcacag cctccccaga
     2281 atcccgaaaa aatcctgttt ttgcagatga ttgcgtgttt gcaaagaccg tttgcggttg
     2341 ggggagctgt gacgacggca accgcacgcg tgagagttcc gctaccggcg cagagagttt
     2401 catcgacagc ggacacctga tgagttgcca caaaaaccgt atgtagcgcg gctagattgg
     2461 ttgagttaga ccttggcggc agttcccggt atgtggtggc gtgacgggtg agatggtgcg
     2521 gcgaagacgc atacgtcacg caggcgcggg ttcttccacc gacgcgcccc gtgatcgatg
     2581 gccttggctc cgtccggcat atcgagagcg gcaaactacc cgtcccttca ctgggagggg
     2641 tgagttgttg ccgttccctc cgaccttcca ccatccagca tatcgcacga tcccatgagc
     2701 accgcaacaa ctgataactc cagagcaaaa aaaaaaaaag gatctgcatc atgtgagagt
     2761 gatcccaccg ctcgccgcag ccccagcgac cgaacgtagt gagcgagtgg gcgaggaagc
     2821 ggaagtgaac cggaaaccac attgagcacg tacgcaccta tgccagatcc gcgcgtagcg
     2881 cgtcgcgaaa tcgaaaacat tgaacaccgg caggcaaacg caccaccacg cagcggaatt
     2941 aatgatgatc tgggcttgtt tcaagatcga gcctgattgc cttaagtttc tgtaatatat
     3001 tgtcttttgg gtatctcagt tcgcctgttt ttgtgtccac tagtccggcc tcgatcagta
     3061 accccgccgc aagaaacagg cggtgattgc gttcccgtcg ttgtgttttc ccctccatcc
     3121 gtttttggtt ggcctgtttg cgtgcgttct cctgtgcctg tagctcgttt tttt
//
