LOCUS       NZ_CP046422             2113 bp    DNA     circular CON 18-JUN-2023
DEFINITION  Escherichia coli strain LZYWN_4 plasmid pS4-unknown4, complete
            sequence.
ACCESSION   NZ_CP046422
VERSION     NZ_CP046422.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13282710
            Assembly: GCF_017310055.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2113)
  AUTHORS   Liu,Z.
  TITLE     Emergency of IncX4 plasmids ecoding mcr-1 in a clinical isolate of
            Escherichia coli from intestinal
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2113)
  AUTHORS   Liu,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-NOV-2019) College of Veterinary Medicine, Northwest
            A&F University, No. 3 Taicheng Road, Yangling, Shanxi 712100, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.48
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1.0x
            Sequencing Technology             :: Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/18/2023 02:59:59
            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)                     :: 4,835
            CDSs (total)                      :: 4,717
            Genes (coding)                    :: 4,511
            CDSs (with protein)               :: 4,511
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 206
            CDSs (without protein)            :: 206
            Pseudo Genes (ambiguous residues) :: 0 of 206
            Pseudo Genes (frameshifted)       :: 61 of 206
            Pseudo Genes (incomplete)         :: 148 of 206
            Pseudo Genes (internal stop)      :: 34 of 206
            Pseudo Genes (multiple problems)  :: 36 of 206
            Pseudo Genes (short protein)      :: 4 of 206
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP046422.1.
            Bacteria and source DNA available from Xiaoping Song, Traditional
            Chinese Veterinary Medicine Lab,College of vetrinary Medicine,
            Northwest A&F University.
            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..2113
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LZYWN_4"
                     /isolation_source="liver"
                     /host="swine"
                     /db_xref="taxon:562"
                     /plasmid="pS4-unknown4"
                     /geo_loc_name="China:Yangling"
                     /lat_lon="34.16 N 108.02 E"
                     /collection_date="2017-05-21"
                     /collected_by="zengyuan liu"
     gene            join(1575..2113,1..427)
                     /locus_tag="GJV83_RS23830"
                     /old_locus_tag="GJV83_23855"
     CDS             join(1575..2113,1..427)
                     /locus_tag="GJV83_RS23830"
                     /old_locus_tag="GJV83_23855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            431..697
                     /locus_tag="GJV83_RS23835"
                     /old_locus_tag="GJV83_23860"
     CDS             431..697
                     /locus_tag="GJV83_RS23835"
                     /old_locus_tag="GJV83_23860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          2..87
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.9700000000000002e-37"
ORIGIN
        1 taaagggaag aactacgtta agcacgaacg ttgggtagaa ctctggcgcg attgcttgcg
       61 ggtgaactat gagccgaata tcgatattcg ggcagtaaaa actaagacag gtgaggttgt
      121 ggccaacgtt gccgagcaac tgcaaagcgc ggttgctgaa acgctgaaat actccgttaa
      181 accggaagat atggcaaacg atcctgagtg gtttcttgag ctgacgcggc agcttcacaa
      241 gcgccgtttt atctcgaccg gtggggcgct aaaaaacgtc ctccagttgg atcgagaaac
      301 caatgaggat cttgtcattg ccgacgatgt aggggatggc actgatgacg ggaagcggac
      361 ggcgtttgtc tgggattcag gtaaacggcg ttacaaacgc gcccctgaga aggataaatc
      421 ggattaacgt atgaatatta atattgaata cctgaatgga aataagacta ttggtttatt
      481 ttttttaaga agtgaagcgg tgattcctga caggtttaaa aaccttattt tgcttattga
      541 tggattaagt tttggcacat ttggttttca tccgcacgaa ggttttgagg atgaattaat
      601 tttatatatt cagaaaacaa acgagagggt aaaaactctt tttgtgaaaa tagatttaaa
      661 cggtatcaag tttggatttt taagaacgca ttcttagttc tggaaaagag ccagcggcag
      721 gctgaggtga taggtacgag attgcatgca atctctagtg ctctgtctat cctgcattat
      781 cctcagcatt atcctcagca ttatcctcag cattatcctc agccttgcca actcgacacc
      841 aatgcaggat agacaatccg atgtcaaatg ttaacactct gcgagtggta cattttcccc
      901 ggattatcgt cctgagcctg ccgctggctc tctttctacc gcctcgcttt gctcgttgct
      961 caacgcctca cagacacgga ttaaaatccg catccgttca ccgtttttta aagtccgtta
     1021 aaagcatgat gccatctccg agagttaatc tcgtcaaatg ctaaatcgtg ggggtcccct
     1081 ttggggttcc gatttagtga ttgacgacac caccgattaa aaaacttatg cggggtggat
     1141 ggtttcacga agtgaggcca tccacctgta agacagggtt ttgtttttat tccctgtttt
     1201 ggtgatcggg tgtgtggaaa aggttggggt aagccgttcg ggggtgcttg ttttgggggg
     1261 ttaaaattgt ggttattttt tgcgcaattc tcgcgcgtga tccttgtatt tatacttaag
     1321 ggataaatgg cggatatgaa atagtggttt agcccagtaa tgacgaggct ttgagtgggt
     1381 tttgacaggt caaagaaaat ggagcagaat tgaggcgttt ttaatcggcg ttggggagtg
     1441 cgtcaacact ccccaacatt tcgaatgtgt cacctcagcg gcaaactctg gtgacatgta
     1501 ctggctcgca atgcacaggt acgtgatgaa tataccacat caaatcacag cctgcccaga
     1561 tcggagcagg cttaatgtca gaagataaat tcctttcgga ctacagcccc cgtgatgcag
     1621 tttgggatac ccagcgcacg cttaccgatt ctgtcggggg tatctaccag actgctgctg
     1681 aattcgagcg ctatgcactc cgtatggcct cctgtagcgg tttgttacgt tttggttggt
     1741 ctaccatcat ggaaaccgga gaaacgcgcc tacggcttcg tagtgcgcaa ttttgccgtg
     1801 tccgtcattg ccctgtctgc cagtggagaa gaaccctcat gtggcaagcc cgtttttatc
     1861 aggctctacc gaaaatcgtt gtggattacc cgtcttcccg atggttgttt ctgacgttaa
     1921 ctgtcaggaa ctgcgagata ggtgaacttg gaacagtcct tacagcaatg aatgcggcgt
     1981 ttaagcgaat ggaaaagcga aaggagctat cacctgttca ggggtggatc agggctacgg
     2041 aggtgacgcg aggtaaggat ggcagcgcac atccgcattt tcactgtctg ctgatggtgc
     2101 aaccttcttg gtt
//
