LOCUS       NZ_CP113177             5025 bp    DNA     circular CON 14-JAN-2024
DEFINITION  Klebsiella pneumoniae strain TSYCC10-2 plasmid pTSYCC10-2_5,
            complete sequence.
ACCESSION   NZ_CP113177
VERSION     NZ_CP113177.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31832933
            Assembly: GCF_026626045.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5025)
  AUTHORS   Yin,Y. and Li,R.
  TITLE     Emergence and spread of tmexCD-toprJ in live poultry market in
            Yangzhou, China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5025)
  AUTHORS   Yin,Y. and Li,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-NOV-2022) College of Veterinary Medicine, Yangzhou
            univeristy, Shuangqiao, Yangzhou, Jiangsu 225009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SPAdes v. v. v3.12.0; unicycler v. v. 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                   :: 01/14/2024 03:16:27
            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)                     :: 5,660
            CDSs (total)                      :: 5,536
            Genes (coding)                    :: 5,377
            CDSs (with protein)               :: 5,377
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 159
            CDSs (without protein)            :: 159
            Pseudo Genes (ambiguous residues) :: 0 of 159
            Pseudo Genes (frameshifted)       :: 60 of 159
            Pseudo Genes (incomplete)         :: 100 of 159
            Pseudo Genes (internal stop)      :: 32 of 159
            Pseudo Genes (multiple problems)  :: 29 of 159
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP113177.1.
            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..5025
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="TSYCC10-2"
                     /isolation_source="chicken"
                     /db_xref="taxon:573"
                     /plasmid="pTSYCC10-2_5"
                     /geo_loc_name="China: Jiangsu"
                     /lat_lon="32.24 N 119.26 E"
                     /collection_date="2022-07"
                     /collected_by="YY"
     gene            359..490
                     /locus_tag="OT486_RS28235"
                     /old_locus_tag="OT486_28235"
     CDS             359..490
                     /locus_tag="OT486_RS28235"
                     /old_locus_tag="OT486_28235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001333247.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_094333875.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPVRHAKAPLAAATGKQDVREM"
                     /name="replication initiation protein"
     gene            799..1176
                     /locus_tag="OT486_RS28240"
                     /old_locus_tag="OT486_28240"
     CDS             799..1176
                     /locus_tag="OT486_RS28240"
                     /old_locus_tag="OT486_28240"
                     /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_142368761.1"
                     /translation="MIHNHPTWVIKSMIYRLGILSISLLTVGCVSTSNVLELGRDTYTV
                     SATADGFRDAASARQSAFKTGSEKCNSLGKKFLLTNENVANTRMGIDTTVTLYFRCLDE
                     RDSEYVRPNLQKAPDLLIESK"
                     /name="hypothetical protein"
     gene            1233..1538
                     /locus_tag="OT486_RS28245"
                     /old_locus_tag="OT486_28245"
     CDS             1233..1538
                     /locus_tag="OT486_RS28245"
                     /old_locus_tag="OT486_28245"
                     /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_136049327.1"
                     /translation="MMKVGNVREYGPTKSHLLLMVTTLPAGVGVFIYPIVEVIWGELSL
                     LKVAGYTFLSLIVGGLLANIIVRGLSATTFGILLVNPLAMICSIAGLIVLAIQHLP"
                     /name="hypothetical protein"
     gene            2580..2801
                     /locus_tag="OT486_RS28250"
                     /old_locus_tag="OT486_28250"
     CDS             2580..2801
                     /locus_tag="OT486_RS28250"
                     /old_locus_tag="OT486_28250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162091.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016947202.1"
                     /translation="MQFDTAAELAALQAQTRRIRQVRYRPSRLDRYTGELLSLYQAGAS
                     AAELQRWLRARRIKVVLSTVTRWLEKNG"
                     /name="hypothetical protein"
     gene            2794..3681
                     /locus_tag="OT486_RS28255"
                     /old_locus_tag="OT486_28255"
     CDS             2794..3681
                     /locus_tag="OT486_RS28255"
                     /old_locus_tag="OT486_28255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947203.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific integrase"
                     /protein_id="WP_238880619.1"
                     /translation="MAKFASAARQAAGVIKPLQGNILRSVGTVRNYEQGLTRVAEWMKA
                     NRINHGDLRTLTPAQAITYLEQRGEQVGQKTLDMERQAIQAMMIHVTQTLPAGEHLPVV
                     KSEQAQILSSRAYSPDQVALIAAAQQPANALATAIALAAGLRAHELLTLAPRQKRAADP
                     RPAADSKFAGREGVIYTVQGKGGLVREVLLPSRLAERLEHVRLASPVRVTDRGVFYQSQ
                     YAIGGGQRWSNAFSAASMRTLGWSRGAHGVRHSYAQQRMQELQKLGLVRDMALRTVSQE
                     MGHFRPEITETYLR"
                     /name="site-specific integrase"
     gene            3678..4376
                     /locus_tag="OT486_RS28260"
                     /old_locus_tag="OT486_28260"
     CDS             3678..4376
                     /locus_tag="OT486_RS28260"
                     /old_locus_tag="OT486_28260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947204.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_048290303.1"
                     /translation="MTRTFILLCTGVFAIAYALYELNHYGVYYPDVSNPEAFTGWKAVT
                     ELGPAILATGIAATAFSLWLFILFFRGSESRRIQREISGYQQALREAEEAHRARQNTLI
                     QNHNLETAALRSHYIGAEDVLREAFAQKESLLLQAVQNARKEARKELEEQREALNQRES
                     ILQKKELALETTLEKARKYVAGERHNTELARLEAEKAEERRRNACATAERRRRKLEKLQ
                     ATGGTAGQKH"
                     /name="hypothetical protein"
     gene            complement(4383..4781)
                     /locus_tag="OT486_RS28265"
                     /old_locus_tag="OT486_28265"
     CDS             complement(4383..4781)
                     /locus_tag="OT486_RS28265"
                     /old_locus_tag="OT486_28265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162088.1"
                     /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_048290302.1"
                     /translation="MATVSISEAARLTGKSRTTLHRLIKAGELSTCRGERNAKMLETSE
                     LLRVFGAFASVPVEQRGEQVSGQRDTVTSDHNEQVIHTLKQEIEHLNTLLASKDSHIDS
                     LKQAMLLLENREDQRQNTTRPWWRFWQS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4781..4972)
                     /locus_tag="OT486_RS28270"
                     /old_locus_tag="OT486_28270"
     CDS             complement(4781..4972)
                     /locus_tag="OT486_RS28270"
                     /old_locus_tag="OT486_28270"
                     /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_016947206.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSLRLDALQEGD"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2..468
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.102"
                     /coverage="90.0"
                     /evalue="1.25e-178"
ORIGIN
        1 ctcgctcact ccgtcgctac gctccagccg ttcggctgcg gcgagcggac gggacacaca
       61 gaagagtcat cgcgataacc gggaagaaaa gagcctgtgg aaaaagccac ggtgttgccg
      121 tttttccata ggctccgccc ccctgacaag catcacagaa tctgacgctc aaatcagcgg
      181 tggcgaaacc cgacaggact ataaagatcc caggcgtttc cccctggtag ctccctcgtg
      241 cgctctcctg ttcctgcctt tcggtttacc ggtgtcattc cgctgttatg gccgcgtttg
      301 tctcattcca cgcctgacac tcagttccgg gtaggcagtt cgctccaagc tggactgtat
      361 gcacgaaccc cccgttcagt ccgactgctg cgccttatcc ggtaactatc gtcttgagtc
      421 caacccggta agacatgcaa aagcgccact ggcagcagcc actggtaaac aggatgtgcg
      481 agagatgtag taagagttct tgaagtgatg gcctgagtgc ggctacactg aaaggacaga
      541 tttggtgaca tgtctcgcac aagactgtta ccgcggttag aaaatctgcc aggattaact
      601 aaccttcgaa aaaccacctg ccagggtggt tttttcgttt actgagcaag agattacgat
      661 gccaaagaaa ggatctcaag aggatcctgt tccatatgcc tacccctgaa gtgaaaccag
      721 caccactccg cgacaccaac tatcaaaata aaattattga actcattgat tttaataaga
      781 aaaaaaacag atataatcat gatccacaat cacccaactt gggtaataaa atcaatgatt
      841 tataggttag gtattttatc aatatcgctg cttactgttg gttgtgtttc taccagcaac
      901 gttcttgagt taggtaggga tacatatacg gtttcagcaa ctgctgatgg ttttagagat
      961 gcggcatcag cacgtcaaag tgcctttaaa acaggttctg agaaatgtaa tagcctcggt
     1021 aaaaaattcc tgctcactaa cgaaaacgtg gctaacacaa gaatggggat agataccaca
     1081 gtaacactct atttccgttg tcttgacgaa agagacagcg agtatgtacg accaaatcta
     1141 cagaaagcac cagatctact catcgagagt aagtaattat gaatttcctt atgatcatga
     1201 tcctatggtg gatatcgtca ttcatcacac acatgatgaa agttggaaat gtcagagagt
     1261 acggtcccac taaaagccat ttgctgttaa tggttacaac gcttcctgct ggcgtaggtg
     1321 tttttatcta tccgatagta gaggtgatat ggggagagct gtcgttactg aaagttgctg
     1381 gttatacctt tttatccctc attgttggcg gacttcttgc caatatcatt gttcgcggat
     1441 tatctgcgac aacattcggc attttgctcg taaacccatt agcaatgata tgcagcattg
     1501 ccggactgat agttcttgct atccaacatt taccataatc ccttcttacg cgcaccgcga
     1561 aaacggcctc agggcgtttc tggtggttaa cgggcaaaag gtggtggcaa gtacaccgaa
     1621 aaccgccaga aacgcgcctg atttatttta cgcatatgca tggctattca caccaccgca
     1681 tagccggtga tttcggtcga gaaaagggcc ccggacgtta aaagcataaa agaacgggcc
     1741 atccaggccc gtcaaatgag gacaactctg taaaaggacc atcgcacctg gtgcggtgcc
     1801 ggcgacaaga aaaagatagt tcatatcagc ccctcaccgg agaaaaatat ttccgggcca
     1861 cctcaaccgc cacacgctgt gttcccgtta actcgcgcag ataacgcagg aacatcctgt
     1921 tttcctctgc atgcgcctcc tcactgccct gtgcgtggta ttccactatc gcgttcacca
     1981 cggactcacc gacctgcatc gtctgacctc atctgcactt tcatcacacc gtttcagatc
     2041 ccgccacctc gccatgatgt gaaacggtga ccgggcaggc aaattttttg tctgtccggt
     2101 caccgttggc ggggtccggg gcggtcagtc ccggtgtttt ttattccgcc aaatcagcac
     2161 ctgcgacacc cgctatgtac gacgcataaa tgcgcctgta catagcgggt gtcgctattg
     2221 agcggagtca ggcgcaacat ttaaaaaaca acattcacac gcacgaaaaa cctggctagt
     2281 atttagtcaa accatgagga ggcgcactct gacgcgcacc tgcctaccgg cagcaggtaa
     2341 aacagccggg tccctccggg gatactgtac cgggcagccc aatccgagaa tcctgagaaa
     2401 acagctaaaa tctgcgagac cggcaatcag gtcaggccat tccctggctt aagggacgtt
     2461 atcagccgcg agcagtccgg gctgaaccac gagaggttcg aacgagggcg atcggcgcat
     2521 gccgcagtga ccgttaacgt aacggccact gatgttctta cacccaatcc ggagcacaga
     2581 tgcaatttga taccgctgcc gaactggccg ccctgcaggc gcagacccgc cgtatccgcc
     2641 aggtccgcta ccgtccctcc cgccttgacc gctataccgg cgaactgctg agcctgtacc
     2701 aggccggggc cagtgcagcg gagctgcaac gctggctccg ggcccggcga atcaaggtgg
     2761 tgttgtccac ggttacccgc tggctggaaa aaaatggcta aattcgccag cgctgcccgc
     2821 caggcggctg gcgtgataaa accactccag ggaaatattc tgcgctctgt cggcacagtc
     2881 cggaattacg agcagggact gacccgcgtc gcagagtgga tgaaagccaa ccggattaat
     2941 cacggcgatt tacgcacact gacaccggcg caggccatca cctacctgga gcagcgcggg
     3001 gagcaggttg gccagaaaac gctcgatatg gaacgccagg ccatccaggc catgatgatc
     3061 cacgtgacgc agaccctccc tgccggcgaa cacctgccgg tggtgaaatc ggagcaggca
     3121 cagatcctga gcagccgggc ctacagcccg gaccaggtag ccctgattgc cgcagcacaa
     3181 cagcccgcca acgctctggc caccgcgatt gccctggccg ccggattacg cgcccatgaa
     3241 ctgctgaccc tcgcgccccg ccagaagcga gcagcggatc cccgtccggc agcggacagt
     3301 aaatttgccg gtcgggaggg tgtgatttac accgttcagg gcaaaggcgg cctggtcagg
     3361 gaagttctgc tgccgtcacg cctggctgaa cgtctcgagc atgtcaggct ggccagcccg
     3421 gtccgggtga ccgatcgcgg cgtgttttac cagagtcagt acgccattgg cggaggccag
     3481 cgctggtcaa acgccttcag tgccgcctcc atgcgtaccc tgggctggtc acggggggcg
     3541 cacggcgtgc gtcacagcta cgcccagcaa cggatgcagg agctgcaaaa actcggtctg
     3601 gttcgtgata tggccctgcg caccgtcagc caggaaatgg gccattttcg tccggaaatc
     3661 acggagacat acctgcgatg acaagaacat ttattttatt gtgtaccggt gttttcgcca
     3721 tcgcgtacgc cctgtatgag ctgaatcact atggcgttta ctatccggac gtcagcaatc
     3781 ctgaggcgtt tactggctgg aaggcggtca ccgaactcgg tcccgctatc ctggcaacgg
     3841 ggatcgcagc cacagcgttc tcgctgtggc tgttcatttt gtttttcaga ggctcagagt
     3901 cccgccggat acagcgcgag ataagcggat atcagcaggc actgagggag gcagaagagg
     3961 ctcacagagc cagacaaaat acccttattc agaatcacaa cctggagaca gcggccctgc
     4021 gaagccacta cattggtgct gaggatgtac tgcgggaagc gtttgcgcaa aaagaaagcc
     4081 tcttgcttca ggcggtgcag aatgcccgga aagaagccag aaaggagctg gaagaacaga
     4141 gggaggcact gaatcagcgc gaatccatcc tgcagaaaaa ggagctggcg ctggaaacaa
     4201 ccctggagaa ggcccggaaa tatgtggccg gggagcggca taacaccgag ctggcccgtc
     4261 tggaagcaga gaaagcagag gaaagacgga gaaatgcctg cgcgacggcg gaacggcgca
     4321 gacggaaact ggaaaaactc caggccactg gcggaacagc agggcaaaaa cactgaggca
     4381 tttcaggact gccagaaacg ccaccagggc cgggtcgtgt tctgccgctg atcttcccgg
     4441 ttctccagca acaacatcgc ctgtttcaga ctgtcgatat gtgaatcttt tgaggcaaga
     4501 agtgtgttca ggtgttcaat ttcctgtttc agagtatgaa tgacctgttc attatggtca
     4561 gaagtgactg tgtcacgctg tccactgacc tgttcacccc tctgttcaac gggtacagac
     4621 gcaaaggcac caaacacccg caaaagctct gaagtctcga gcattttcgc attccgttca
     4681 ccccgacagg tggacagctc accggcttta attaacctgt gcagggttgt cctgctctta
     4741 cccgtcaggc gtgcagcctc actgatcgac actgtcgcca tcagtcaccc tcctgtagtg
     4801 catccagtct gagggacagt gtacggaaaa gatgctccgc atcatcgtgg agtttctcac
     4861 aaaggtcagc ctccgcatcg agatcaagct cattaagctt ctccagcagg agcagggact
     4921 gattctggat gaatttagcc atattcaggg cagttttctg ttgtttcgtc ataaggggcc
     4981 tcagggcgtc agtgctcagt gtcaaaccgg tctcttttcc gcttc
//
