LOCUS       NZ_CP047458             2028 bp    DNA     circular CON 25-JUN-2024
DEFINITION  Escherichia coli strain ZF31 plasmid pZF31-2kb, complete sequence.
ACCESSION   NZ_CP047458
VERSION     NZ_CP047458.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13742197
            Assembly: GCF_011045875.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2028)
  AUTHORS   Peng,K. and Li,R.
  TITLE     The genomic epidemiology of tigecycline resistance gene tet(X)
            variants in a swine farm in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2028)
  AUTHORS   Peng,K. and Li,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-JAN-2020) 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. v0.4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_011045875.1-RS_2024_06_25
            Annotation Date                   :: 06/25/2024 03:50:15
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,686
            CDSs (total)                      :: 4,565
            Genes (coding)                    :: 4,318
            CDSs (with protein)               :: 4,318
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 247
            CDSs (without protein)            :: 247
            Pseudo Genes (ambiguous residues) :: 0 of 247
            Pseudo Genes (frameshifted)       :: 68 of 247
            Pseudo Genes (incomplete)         :: 182 of 247
            Pseudo Genes (internal stop)      :: 33 of 247
            Pseudo Genes (multiple problems)  :: 34 of 247
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047458.1.
            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..2028
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ZF31"
                     /isolation_source="a feces sample of swine origin"
                     /db_xref="taxon:562"
                     /plasmid="pZF31-2kb"
                     /geo_loc_name="China: Nantong, jiangsu province"
                     /lat_lon="31.41 N 120.11 E"
                     /collection_date="2018-05"
                     /collected_by="College of Veterinary Medicine, Yangzhou
                     University"
     gene            1..441
                     /locus_tag="GTK48_RS22505"
                     /old_locus_tag="GTK48_22430"
     CDS             1..441
                     /locus_tag="GTK48_RS22505"
                     /old_locus_tag="GTK48_22430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000031238.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MarR family transcriptional regulator"
                     /protein_id="WP_024192735.1"
                     /translation="MSKDTQRITQINDQGEIVGGFVAVIRPKQKSSFQRHFTMNQDALK
                     ILAKELTGEQFKVLMLMLADLDYENFIQIAQADIADALEMQKTHVSRAVRALLDVGVIF
                     EGPKVGRSKTYRLNEQFGWKGTVSNHKKALKNGLSVIQGGRT"
                     /name="MarR family transcriptional regulator"
     gene            complement(505..1473)
                     /gene="mobV"
                     /locus_tag="GTK48_RS22510"
                     /old_locus_tag="GTK48_22435"
     CDS             complement(505..1473)
                     /gene="mobV"
                     /locus_tag="GTK48_RS22510"
                     /old_locus_tag="GTK48_22435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_000024818.1"
                     /translation="MANYAIMRCKKLTGMGSVASALQHCYRERETPNANAERTPENYCS
                     VSKSTDQAMGRVRELLPEKRRKDAVLAVEYVMTASPEWWKEATPRQQAEFFARSEQWLE
                     KKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMREDQSTYAESVK
                     KLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPRVLRKGIFTKDVEDQAA
                     IAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKRLQSVTEPFKGLSREQM
                     TEILMMAQRFKQQNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="mobV"
     Typing          complement(509..1482)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.077"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcaagg acacccagag aatcacccag attaacgatc aaggtgagat tgttggcggc
       61 ttcgtcgcgg taatcagacc caagcaaaaa tcgtcatttc agaggcattt cactatgaac
      121 caagacgcat taaagatcct cgctaaggag ctaacgggcg agcaatttaa agttctaatg
      181 ctcatgctcg ctgatctgga ttacgagaat ttcatccaaa ttgcacaggc tgatatagcg
      241 gatgcattgg agatgcaaaa gacccacgta agccgcgctg ttcgtgctct tcttgatgta
      301 ggcgtgatct ttgaaggtcc gaaagtaggt agatccaaaa cctatcggtt gaacgagcaa
      361 ttcggctgga aaggaacagt aagcaatcac aaaaaagccc ttaaaaacgg cctcagcgtt
      421 atacagggcg gcagaacctg atctctggaa tgccgcaaat gacgtcactt tgcggcgtta
      481 gccctatcct gcatcgcatc aaaactaacg ctccatacca cccatgccac gcgatcgcgt
      541 ctgtcgctgt ttttcacgtt caatacgctg ctgtttttcc ttttcctggt tttgctgctt
      601 aaaccgctga gccatcatca ggatttcggt catctgctct ctggaaagcc ccttaaaagg
      661 ctctgtaacg ctctgtaggc gtttctgctg cgcatccata gtcttctgta gctcacgcgc
      721 tctttttgcg ttctgggcgc tctgagaggc catagcgatg gttcctgcaa agccatcgtt
      781 cactgcgtgg cttagacgtt tggctatggc tgcctgatct tccacgtctt tggtgaaaat
      841 gcccttccgc aatacacgcg gctccagcgc ctccggcgag atcgatacct ggctacgggt
      901 gccacggttt atcgattcgt agtagtgctg aactgtctga tgcgtggcgc ggcttccctc
      961 gatgccgcgc tcaagaccca gtttttttac tgattcagcg taggtgctct gatcttcacg
     1021 catctttgac cgcccgccaa taaactcttt cgcggacagc cgtccatcct gcgtcaatgg
     1081 caccacgaac gcagacaggt gcggggtggc ctcgtcccgg tgaaccaccg ccgccacaac
     1141 acgatccttc ccgtatttct tctccagcca ttgctcagag cgggcgaaaa actccgcctg
     1201 ctgccgtggt gtggcctctt tccaccactc agggcttgct gtcataacgt attcaacggc
     1261 cagtaccgca tctttacggc gtttttccgg cagcagctcc cgcacacgcc ccattgcctg
     1321 atccgttgat ttggacacag agcagtagtt ttctggtgtc cgttcagcgt tagcgttcgg
     1381 cgtctcacgc tctcggtagc agtgctgcaa cgcgctggcc acgcttccca ttcccgtcag
     1441 ctttttgcag cgcattatcg cgtagttcgc catgttcccc cctgattccg gcattcattc
     1501 agccaggcgg gggagcgcat tgcgatacct ccggcgggcc actatcaaga tgatagtgta
     1561 ctcactagac tttgcttcgc aaaatcgttc gggcagcaag ctgccagaag gtcaaaatca
     1621 acggcggtct ggcaggtgga aggcgtcgct ccgcgccact cccaccactg ccaagcctgt
     1681 tttatccgga gtgtcgtcaa gggtaaatgg cactcgcttc gctcgccctt gacgaaatca
     1741 ggcaatgaat atcgcttttg aaagagcagg aaccgctcgc cgcagactca tgaccgaacg
     1801 tagtgagcga atgagcgagg aagcggaatt tccactcccc gtacatagaa atccgtacac
     1861 tccgtagcta aaaaacgttg gtattcagag ctaaaccgcg cgcacgcgtt ataagataca
     1921 gaaggagcga taaaaaaacg tatgtatggc gaggggttac atttgacata gttaccaata
     1981 atggtaacac tgttaccatt attggtaact caagataggt tattttcg
//
