LOCUS       NZ_CP129188             4822 bp    DNA     circular CON 13-JUL-2023
DEFINITION  Klebsiella pneumoniae strain YZE1-3D plasmid pYZE1-3D-5, complete
            sequence.
ACCESSION   NZ_CP129188
VERSION     NZ_CP129188.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35779363
            Assembly: GCF_030412885.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4822)
  AUTHORS   Wang,Q. and Li,R.
  TITLE     Distribution and transmission of the tigecycline resistant gene
            cluster tmexCD-toprJ in Klebsiella pneumoniae from animal feces
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4822)
  AUTHORS   Wang,Q. and Li,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUN-2023) College of Veterinary Medicine, Yangzhou
            University, Shuangqiao Street, 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 :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/12/2023 23:06:50
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,650
            CDSs (total)                      :: 5,527
            Genes (coding)                    :: 5,360
            CDSs (with protein)               :: 5,360
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 167
            CDSs (without protein)            :: 167
            Pseudo Genes (ambiguous residues) :: 0 of 167
            Pseudo Genes (frameshifted)       :: 70 of 167
            Pseudo Genes (incomplete)         :: 99 of 167
            Pseudo Genes (internal stop)      :: 31 of 167
            Pseudo Genes (multiple problems)  :: 29 of 167
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP129188.1.
            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..4822
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="YZE1-3D"
                     /isolation_source="Laying hen"
                     /db_xref="taxon:573"
                     /plasmid="pYZE1-3D-5"
                     /geo_loc_name="China: Jiangsu"
                     /lat_lon="32.24 N 119.26 E"
                     /collection_date="2022-11"
                     /collected_by="Qiaojun Wang"
     gene            588..881
                     /locus_tag="QTN19_RS27640"
                     /old_locus_tag="QTN19_27640"
     CDS             588..881
                     /locus_tag="QTN19_RS27640"
                     /old_locus_tag="QTN19_27640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012535809.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048290307.1"
                     /translation="MTIVISKEIEEKLTTKHKVTKKEVHESLANLNGNLLIDNREQHKT
                     NPPTNWFIAETNQRRELKVCFMIIDGDIHIKTAFEPNEIERKIYATHGKKTT"
                     /name="hypothetical protein"
     gene            1078..1446
                     /locus_tag="QTN19_RS27645"
                     /old_locus_tag="QTN19_27645"
     CDS             1078..1446
                     /locus_tag="QTN19_RS27645"
                     /old_locus_tag="QTN19_27645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014778268.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048290306.1"
                     /translation="MKTTSEFARDAQKWDDRELGASENHVEVASMADMSAFNDALSLQA
                     ISIRLQKNLVSDLKSIAESYGIGYQPMVRDLLQRFVIAERKQALRRELDKLNEREEIHQ
                     QEDTVPVDEFIESIRKQA"
                     /name="hypothetical protein"
     gene            1502..1630
                     /locus_tag="QTN19_RS27650"
                     /old_locus_tag="QTN19_27650"
     CDS             1502..1630
                     /locus_tag="QTN19_RS27650"
                     /old_locus_tag="QTN19_27650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012587681.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_072201952.1"
                     /translation="MSLKPGPKRIADSTGQPDRRQRDNKKTPGNTDKLKPSKSSSK"
                     /name="hypothetical protein"
     gene            1700..1963
                     /locus_tag="QTN19_RS27655"
                     /old_locus_tag="QTN19_27655"
     CDS             1700..1963
                     /locus_tag="QTN19_RS27655"
                     /old_locus_tag="QTN19_27655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891192.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein L"
                     /protein_id="WP_072072086.1"
                     /translation="MAAHTSETVKFLQSVSSDQTWWKSRYNPGDSVPYSGIYRCTVCGK
                     EITSNGSDPFPPQNHHQHSQQQAIKWQLIVRTDTKGDRFGIK"
                     /name="protein L"
     gene            complement(2694..2957)
                     /locus_tag="QTN19_RS27660"
                     /old_locus_tag="QTN19_27660"
     CDS             complement(2694..2957)
                     /locus_tag="QTN19_RS27660"
                     /old_locus_tag="QTN19_27660"
                     /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_048290305.1"
                     /translation="MVNLNDICRSKKAAWIGGFFIFLARQNGIFDTNSGWLLLRVQFLS
                     RTVLRAVLLYLQLLRYSMGMYEADRGFQTFFITPFFYQQTWI"
                     /name="hypothetical protein"
     gene            complement(3685..4086)
                     /locus_tag="QTN19_RS27665"
                     /old_locus_tag="QTN19_27665"
     CDS             complement(3685..4086)
                     /locus_tag="QTN19_RS27665"
                     /old_locus_tag="QTN19_27665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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_064175096.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKTGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPTPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4086..4277)
                     /locus_tag="QTN19_RS27670"
                     /old_locus_tag="QTN19_27670"
     CDS             complement(4086..4277)
                     /locus_tag="QTN19_RS27670"
                     /old_locus_tag="QTN19_27670"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4326..4801
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.852"
                     /coverage="92.0"
                     /evalue="2.7e-180"
ORIGIN
        1 cttatgcgcc ggttaaggct aaactaaacg aacagttttg gtgactgtgc tcctccaagc
       61 cagttacctc ggttcaaaga gttggtagct cagagaacct tcgaaaaaac cgccttgcag
      121 ggcggttttt tcgttttcac agcagtgaga ttacgacgac taacacatga tctcaagaag
      181 atcctcagcc taagattgtg cctttttctt tttgctatct gcagcacctt taacacgaca
      241 aactctacac cacgtctgag gagctacgtt gccgcgtaga tttctaaaac caaatagagc
      301 gtcaacctct tgataggtca aagctacgac tgggttcaat cgataatcat agtcagaaca
      361 atgacatgaa tgaggcaatg ctattgtatt gctcataact tcttctatat ctatctttca
      421 taaccaatat caacggacca aaggctgcga agaagcaatc gaaacagcct atgtatatac
      481 acatagaaaa tgaaaacacc ttaacaatca agccatggat tgacaaatgt aaattttgta
      541 tatacaatga attcaatttc acaacaaagg ccgaggcatc atgaaatatg acaattgtaa
      601 tcagtaaaga aattgaagaa aaactaacca caaaacataa agtaactaaa aaagaagtac
      661 atgaaagcct tgcaaacctt aacggtaacc tgttgataga taacagagaa caacacaaaa
      721 ccaatcctcc aaccaactgg tttatcgctg aaactaacca gcgtagagag ttgaaagtgt
      781 gtttcatgat tatcgatggc gacattcata tcaaaacagc cttcgaaccg aacgaaatag
      841 aacgtaaaat ctatgctacg catggaaaaa agacgacata acagcgctaa ataagtaatt
      901 gttttgcaag gccttaccat gtaagacctt gcaaaaatct tacatcagcg aaagaactaa
      961 aatgaaaatg aagctgaacc tgatttctca acatagaagt tcctttcgga actagataaa
     1021 gcataaatat tgcagttaat cctgatctgc aggaaacagc acctagaggt ctatacaatg
     1081 aaaactacca gtgaattcgc acgtgatgca caaaaatggg atgatcgaga gctcggcgcc
     1141 tctgagaatc acgtagaagt agcatcgatg gctgacatgt cagctttcaa cgatgcacta
     1201 tcactgcaag ccatctcaat aagattacag aaaaatcttg taagcgattt aaaatcgata
     1261 gctgaaagct atggtatagg ttatcaacca atggttagag accttctgca acgatttgtt
     1321 attgcagaaa gaaaacaagc attacgtaga gagttggaca agctcaatga acgagaagaa
     1381 atacatcagc aggaggacac agttccagtt gatgaattca ttgaaagcat aagaaaacaa
     1441 gcatgaaaga gcttaccatc tagatagaaa aaatttcatc gcgtttgaaa ggaggattat
     1501 catgagtctt aaacctggtc caaaaagaat cgcagattca acagggcaac ctgatagacg
     1561 ccaacgtgac aataaaaaaa caccgggaaa tactgataaa ttaaaaccca gtaaatcctc
     1621 aagtaaatga atcagttaaa agccgccttt taggcggctt ttcattgtca gtcctataaa
     1681 ttcagaaaag gaaagctaaa tggctgcaca taccagcgaa acagtgaagt ttttacaaag
     1741 cgtcagtagc gatcaaacat ggtggaagtc acgatataat ccaggagaca gcgttcccta
     1801 ttctggaatt tatcgatgta cagtttgcgg aaaagagatc accagtaacg gcagcgaccc
     1861 gttcccacca caaaaccacc atcagcacag tcagcaacaa gcaataaaat ggcaattgat
     1921 tgtcagaacg gacactaaag gtgaccgttt cggaatcaaa tgattgagag ccctccgggg
     1981 cttttttttg cacctgaagc tcgaagatat ttaccataac atcccagccc cgcacttctt
     2041 gtatgctaac aatcgttacg ctgcatgagc gcacgaacga gatgcatgag tctttctcgc
     2101 cctccaaaaa agttaaacaa aaaaaacaaa tcagattaag tcattgtatt taatgcatta
     2161 attaaaattt acagccttta gataatagaa aaataaatta aaaatcaatc acttaaaaaa
     2221 atacacaatt tactttactt gtttagtttg tcagttatta taaatgaata ttagttactg
     2281 atattaatgg tggtttttca tggcggttgt tgttatctat cgggctaaat gcatggcttg
     2341 tcggcatgaa tggactagta ggagtgggtt tggaacaccg aactactgcc ctaaatgtcg
     2401 ttcaaaatta attagttgca gtgcaattaa gtaggtcaaa atgacatcaa aacacaaagg
     2461 gttatgtcct ttttgtaaag ctgaagttat acctcgtgta attcaagaaa accatgtacg
     2521 acgagataag tgcgaatgcc ctgagtgcaa agaagcaatt tacatatgtc gcgctccggg
     2581 gtgtgagaat tacgctaagg gtggtcgttt gtatgacgat gagttgtgtc cgtcatgtac
     2641 atcaggtatt ggcggcggag tcggcacatt aggcatgatc gccttgggtg cagtcatatc
     2701 cacgtttgtt ggtaaaaaaa tggagtgatg aagaatgtct ggaaacctcg gtctgcctca
     2761 tacatgccca tgctgtaacg taacaactgc aaatacagca ggacagctct cagcactgtt
     2821 cggcttaaga actgtaccct caggagcaac caaccagagt tggtgtcgaa aatgccgttc
     2881 tgccgcgcca aaaaaatgaa aaagccgcct atccaggcgg cttttttgct tctgcagata
     2941 tcatttagat ttaccataac gtcttcttgt acgcaccgca aaaacggcct caaggcgttt
     3001 ctgacgggaa accggtaaaa caggcaacaa accacccgaa aacccgccag aaacgcgcag
     3061 gctctgtttt tacggcatgc atgagtatgc acgcaagtgc atagcgcgaa aattcacgcc
     3121 attcagccag ggtaagtcct gtttccggcg ttcttcctat ccgaaaacgg tgaacgggga
     3181 cgcaatttat tgcgtggccg tgaagcgttg ccggcgcagc cggaaaaccg gttttcagca
     3241 cgttcaggaa tcgggttcgt cgacggccgg caatcacgtt atggcaagtc gccggacgac
     3301 tcaccacacg attcaccggc gattcgaatc gtgaattgaa tcaagagtca ccatgaacaa
     3361 aaaaaaccca gagtgatgaa ttgaatcaag agtcgattca tcataacaat atgataataa
     3421 agcgtgattc acatatgaat cgtgggcaat tcgtcagcga ttcgccatag agttgtccac
     3481 gacttggatc tgcactttgt aacacatcac cgcacattta tttttcatta acccattgtt
     3541 gtaaataagg aatctgcaaa attttaattt tgcgtggggt gtgggtattt ttagtggtga
     3601 ggagcgttca gagatctgac gatttttggg aaggttcagg aactccccgg gatggccgga
     3661 gaggaaaact gaagcatgac ggggtcagga ttttttccag aatttccacc atggcgtcgg
     3721 ggattcagtt aattttgcct ggtgattttc aagaaggagc atggcctgtt tcaggctgtc
     3781 aatgtgcgaa tccttggaca aaagtaaggt gttcaggtgt tcaatctcct gtttcagatg
     3841 acgaatcacc tgttcactct ggtcagcaga ggctgtatca cgctgttcag agacctgtcc
     3901 agaatggtgt tcacccttcg gttgctcaaa gggaccaaag acacgtaaaa gctctgaagt
     3961 atctaccatt tttgcattgc gctcaccact acaggtggac aggtcacctg ttttaattaa
     4021 cctgtgcagt gttgtcctgc tcttacccgt cagtcgggca gcctcactaa tagacactct
     4081 ggccatcagt taccatcctg taatgcatcc agtctcgagg acagtgtacg gaaaagatgc
     4141 tccgcatcat cgtggagttt ctcacaaagg tcggcctcga catcgagatc aagctcgtta
     4201 agcttctcca gcaggagcag agactgattc tggatgaatt tagccatgtt cagggcagtt
     4261 ttctgttgtt tcgtcataag gggcctcagg gcgtcagtgc tcagtgtagg gatgttctct
     4321 tttccgcttc ctcgctcact ccgtcgctac gctcctgccg ttcggctgcg gcgagcggac
     4381 gggacacaca gaagagtcat cgcgataacc aggaagaaaa gagcctgtgg aaaaggccac
     4441 ggcgttgccg tttttccata ggctccgccc ccctgacaag catcacagaa acggacgctc
     4501 aaatcagcgg tggcgaaacc cgacaggact taaagatacc aggcgtttcc ccctggtggc
     4561 tccctcgtgc gctctcctgt tcctgccttt cggtttaccg gtgtcattcc gctgttatgg
     4621 ccgcgtttat ctcattccac gcctgacact cagttccggg aaggcagttc gctccaagct
     4681 ggactgtatg cacgaacccc ccgttcagtc cgactgctgc gccttatccg gtaactatcg
     4741 tcttgagtcc aacccggaaa gacatgcaaa agcgccactg gcagcagcca ctggtaactg
     4801 atttagagga gatagtcttg aa
//
