LOCUS       NZ_CP113209             3809 bp    DNA     circular CON 14-JAN-2024
DEFINITION  Klebsiella pneumoniae strain SCLC4-1 plasmid pSCLC4-1_8, complete
            sequence.
ACCESSION   NZ_CP113209
VERSION     NZ_CP113209.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31838583
            Assembly: GCF_026626285.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3809)
  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  JOURNAL   Unpublished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 3809)
  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 03:37:39
            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)                     :: 5,797
            CDSs (total)                      :: 5,672
            Genes (coding)                    :: 5,514
            CDSs (with protein)               :: 5,514
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 158
            CDSs (without protein)            :: 158
            Pseudo Genes (ambiguous residues) :: 0 of 158
            Pseudo Genes (frameshifted)       :: 65 of 158
            Pseudo Genes (incomplete)         :: 96 of 158
            Pseudo Genes (internal stop)      :: 13 of 158
            Pseudo Genes (multiple problems)  :: 14 of 158
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP113209.1.
            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..3809
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SCLC4-1"
                     /isolation_source="environment"
                     /db_xref="taxon:573"
                     /plasmid="pSCLC4-1_8"
                     /geo_loc_name="China: Jiangsu"
                     /lat_lon="32.24 N 119.26 E"
                     /collection_date="2022-05"
                     /collected_by="Yanyun Gao"
     gene            complement(209..631)
                     /locus_tag="OT485_RS28900"
                     /old_locus_tag="OT485_28905"
     CDS             complement(209..631)
                     /locus_tag="OT485_RS28900"
                     /old_locus_tag="OT485_28905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_016809948.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEYNHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(631..822)
                     /locus_tag="OT485_RS28905"
                     /old_locus_tag="OT485_28910"
     CDS             complement(631..822)
                     /locus_tag="OT485_RS28905"
                     /old_locus_tag="OT485_28910"
                     /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_026056049.1"
                     /translation="MTKQQQTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1238..1321
                     /locus_tag="OT485_RS29005"
     CDS             1238..1321
                     /locus_tag="OT485_RS29005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_058655973.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHD"
                     /name="hypothetical protein"
     gene            complement(1584..2012)
                     /locus_tag="OT485_RS28910"
                     /old_locus_tag="OT485_28915"
     CDS             complement(1584..2012)
                     /locus_tag="OT485_RS28910"
                     /old_locus_tag="OT485_28915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016809951.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRFSAKTLDKIDDFIEHFE
                     KYNLFGDPLKKHPAWIGKVSPSWKVPDHYENKEAIELHARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMELPQNFE"
                     /name="hypothetical protein"
     gene            complement(1976..2146)
                     /locus_tag="OT485_RS28915"
                     /old_locus_tag="OT485_28920"
     CDS             complement(1976..2146)
                     /locus_tag="OT485_RS28915"
                     /old_locus_tag="OT485_28920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_171482495.1"
                     /translation="MKTEQRHDLIKDTEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQVRKIHS"
                     /name="hypothetical protein"
     gene            2304..2732
                     /locus_tag="OT485_RS28920"
                     /old_locus_tag="OT485_28925"
     CDS             2304..2732
                     /locus_tag="OT485_RS28920"
                     /old_locus_tag="OT485_28925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /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_016809950.1"
                     /translation="MTYSIEEKWKAGGLSLGWTAIPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWNLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDSRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKRPVYTVRKTTT"
                     /name="helix-turn-helix domain-containing protein"
     gene            3016..3216
                     /locus_tag="OT485_RS28925"
                     /old_locus_tag="OT485_28930"
     CDS             3016..3216
                     /locus_tag="OT485_RS28925"
                     /old_locus_tag="OT485_28930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017802053.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sigma-70 region 4 domain-containing protein"
                     /protein_id="WP_042918523.1"
                     /translation="MFGFGIQGTINKGFFLQMARRDQDAFLQYLYDQGYSAKDISKNFD
                     IPVPSVYNRINAHRGRGPLPN"
                     /name="sigma-70 region 4 domain-containing protein"
     Typing          871..1347
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.797"
                     /coverage="91.0"
                     /evalue="4.61e-163"
ORIGIN
        1 catagagtcg gatctatgta aataaaattt aaaaaacgaa atttcacgaa agtaaaccac
       61 tgatattaaa tacaaatctg caaaatttta attttgcgta gtgtgtgggt atttttagtc
      121 gtgaggagcg ttcagagatc tggcgatttt tgggaaggtt caggaactcc ccgggatggc
      181 cggagaggaa aactgaagca tgacggggtc aggatttttt ccagaatttc caccacgggg
      241 aatggggtgg tgaagaaggt tcgtgattgt actccagaag ctgcatagcc tgacgaaggg
      301 aatcaatatg ctcatctcga gccttaacag cccctttaag accatcgttt tcagcttcta
      361 gtaaagcaat tctatgttgt aaatcatgta aaccaacgct gttaacacct gtagattctg
      421 cgtcactttt tacatcatat tttacagtat cgatgacacc atcaagagaa ccaaacactc
      481 taataagctc tgaggtatca ataactttaa tagccttccc gtgctttaca acagaggtgt
      541 aacttaactt cccactgtta atcatcttgt aaattgtggg gcgactaacc ttaacaagcc
      601 gtgccgcttc actaatagac actctggcca tcagttacca tcctgtaatt catccagtct
      661 cgaggacagt gtacggaaaa gatgctccgc atcatcgtgg agtttctcac aaaggtcggc
      721 ctctacatcg agatcaagct cgttaagctt ctccagcagg agcagagact gattctggat
      781 gaacttagcc atgtttagcg ccgtttgctg ttgtttcgtc ataaagagcc tcagagcgtc
      841 agtgctcaat gtaaaaactg tctcctttcc gcttcctcgc tcactcagtc gctacgctcc
      901 tgccgttcgg ctgcggcgag cggtcgcaac tcacgtataa gagcataaga cgacagggct
      961 gatagccgga ggggacaaaa taaggtcgcg gcgttgccgt ttttccatag gctccgcccc
     1021 cctgacaagc atcacagaag cggacgctca aatcagtggt ggcgaaaccc gacaggacta
     1081 taaagatacc tatcatttct gataggcggc tccctcgtgc gctctcctgt tcctgccttt
     1141 cggtttaccg gtgtcattcc gctgttatgg ccgcgtttat ctcattccac gcctgacact
     1201 cagttccggg taggcagttc gctccaagct ggactgtatg cacgaacccc ccgttcagtc
     1261 cgaccgctgc gccttgtccg gtaactatcg tcttgagtcc aacccggaaa gacacgacta
     1321 atcgccattg gcaacggcca ctggtaagca ggatgtgcga gagatgtatt gagagttctt
     1381 gaagtggcgg cctaactgag gctacactgg aaggacggat ttggtgacat gtctcgcaca
     1441 agactgttac cacggttaga taatctgcca ggattaaata accttcgaaa aaccacctgc
     1501 cagggtggtt ttttcgtttt cacaacagtg agattacgac gaggttgaat gaatctcaag
     1561 atttcattta gtctgctacc cgatcattca aagttttggg gtagttccat cgggtcatgg
     1621 tatcccagtt ctaaaagctt tatatggttc ggtgtcagcc gctggaaatg gataacccag
     1681 tcagaaacct tgtatttccc atgaaacgta tctttgaaaa ccggatcgcc taaatgagca
     1741 tgccataact tgttagctct agcgtgcagc tcaatagctt ctttgttttc gtaatgatca
     1801 ggcactttcc acgacggcga tactttacca atccaagctg gatgtttttt taaaggatcg
     1861 ccaaagaggt tatatttttc gaaatgctca atgaaatcat cgattttatc gagtgttttt
     1921 gcagaaaatc gggatgtgta atagagattg aaagtctcag agaacgagac aatattcaac
     1981 tgtggatttt gcgcacctgc tccgctgccc atgctcttct ctgctcccta cttagaccag
     2041 atggcattgt aacagacttc tcattcgctc tggaaatcaa cagagacaag gatacgccaa
     2101 atacttcagt atctttaata agatcatgac gttgttcggt tttcatatcg ttaactccgt
     2161 atctaattca gacaggaaaa aatctttttt ccgctttcag agtagtcttt tgtagttgca
     2221 ctataatggc gttgatgtca ccctattcat atgaataatc atataatata tacttcaaat
     2281 atttttgttt tttaggaaaa tcaatgactt actctattga ggaaaaatgg aaggctggcg
     2341 gtttgtctct tggctggact gcaataccta ctgtcttgtt ttttatacag aacgagaaaa
     2401 agctaacctc cgtagccttt aacactctgc ttaacctgat cgttcattgg tggaatttgc
     2461 aagaatggcc gcatccatca atggaaagcc tagccatacg tatgggggtt tctgtaagga
     2521 cagttcagag agctatcaat gatctggaaa aagctaatct cttggacaag aaaccaacgt
     2581 cgaagagtga tagccgatat ggaggtcgta atatttatga tctaacaaag ctcgttgatt
     2641 acctggatac aatgggccca tcagtagctg aacaggttaa gaaaccccgt cataaaagac
     2701 cggtatatac cgtaagaaaa acaacaactt aaaaaagagc aattgcactg ttcgaaggaa
     2761 aaacgataac tactctatgg tattgcttgc tgtataggta ttggtggtcc tgcggctggt
     2821 tcatcgcttc acggttaaaa tagtcctgta agctgttaat atttaacata acactactac
     2881 cacgaaccta cgtaacaatc gctaccaaca cagaagtgac aaatttataa aaaaacaaaa
     2941 accataaaaa aacttgactt tatgtttttt ttggctaatt tctttatcat ttctttatca
     3001 aaaatagagg tggctatgtt tggttttgga attcaaggta ctattaataa aggatttttt
     3061 cttcagatgg ctcgtagaga tcaggatgca tttttgcaat atctctatga ccaagggtac
     3121 tcagcaaaag atatcagcaa gaacttcgat attccggttc ctagcgtcta caacagaatc
     3181 aacgctcacc gaggccgtgg acctcttccc aattaatggt tcttctatac aaaaaagtcg
     3241 cctggatagg cgactttttt aactgaactc tgtgtataga tttaccataa cgtctcaatt
     3301 gtacgcaccg ctaaaacggc ctcagggcgt ttctgacgga aaaccggcaa aacaggcaac
     3361 aaaccacccg aaaacccgcc agaaacgcgc aggctccgtt tttacggcat gcatgagtat
     3421 gcgcacaagt gcatagcgcg aaaactcacg ccattcagcc agggtaagtc ctgtttccgg
     3481 cgttctttcc atccgaaaac ggtgaacggg gacgcaattt attgcgtggc cgtgaagcgt
     3541 tgccggcgca gccggaaaac cggttttcag cacgttcagg aatcgtgttc gtcgacggcc
     3601 ggcaatcacg ttatggcaag tcgccggacg actcaccaca cgattcaccg gcgactcttc
     3661 actagagtcg tacccagagt cgctgagtct aaaaaacaac caaacgggga gtcgggtcta
     3721 gagtcgggtc gttattaact cattgttttt atagtcctga gtcgttaccg actctatgac
     3781 gactcgccgg ggactctatg acgagtcgt
//
