LOCUS       NZ_CP053743             2046 bp    DNA     circular CON 13-JUN-2023
DEFINITION  Escherichia coli strain CP8-3_Sichuan plasmid pCP8-3-2k, complete
            sequence.
ACCESSION   NZ_CP053743
VERSION     NZ_CP053743.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14944002
            Assembly: GCF_013201235.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2046)
  AUTHORS   Li,R., Du,P., Zhang,P., Li,Y., Yang,X., Wang,Z., Wang,J. and Bai,L.
  TITLE     Comprehensive genomic understanding of coevolution of mcr genes in
            E. coli strains via nanopore sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2046)
  AUTHORS   Li,R., Li,Y., Zhang,P. and Bai,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-MAY-2020) College of Veterinary Medicine (Institute of
            Comparative Medicine), Yangzhou University, Wenhui Road, Yangzhou,
            Jiangsu 225009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/13/2023 03:37:23
            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)                     :: 4,918
            CDSs (total)                      :: 4,800
            Genes (coding)                    :: 4,586
            CDSs (with protein)               :: 4,586
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 214
            CDSs (without protein)            :: 214
            Pseudo Genes (ambiguous residues) :: 0 of 214
            Pseudo Genes (frameshifted)       :: 68 of 214
            Pseudo Genes (incomplete)         :: 150 of 214
            Pseudo Genes (internal stop)      :: 33 of 214
            Pseudo Genes (multiple problems)  :: 37 of 214
            Pseudo Genes (short protein)      :: 4 of 214
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP053743.1.
            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..2046
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CP8-3_Sichuan"
                     /isolation_source="slaughterhouse"
                     /host="pig"
                     /db_xref="taxon:562"
                     /plasmid="pCP8-3-2k"
                     /geo_loc_name="China: Sichuan"
                     /collection_date="2016-07"
     gene            join(1346..2046,1..316)
                     /gene="mobV"
                     /locus_tag="HP430_RS24280"
                     /old_locus_tag="HP430_24345"
     CDS             join(1346..2046,1..316)
                     /gene="mobV"
                     /locus_tag="HP430_RS24280"
                     /old_locus_tag="HP430_24345"
                     /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_089622504.1"
                     /translation="MRSPDWLDGRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENHCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWKEAT
                     PRQQAEFFAHSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMRDDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDSQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQQNQEKEKQQRVEREKQRQMRSRGMGGMER"
                     /name="mobV"
     gene            complement(380..814)
                     /locus_tag="HP430_RS24285"
                     /old_locus_tag="HP430_24350"
     CDS             complement(380..814)
                     /locus_tag="HP430_RS24285"
                     /old_locus_tag="HP430_24350"
                     /inference="COORDINATES: protein motif:HMM:NF017542.2"
                     /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_004193480.1"
                     /translation="MSNRITQIDTATGEEVGSFVAVIRPKQKSAFERHFTMNQDALKIL
                     AKTLTGEQFKVLMMLLADLDYENYIQIAQADIADALGMQKTNVSRSVKALIDLSVILQG
                     PKVGRSYSYRLNPQFGWKGTVSNHKKALKNGLSVIQGGRT"
                     /name="helix-turn-helix domain-containing protein"
     Typing          3..313
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.192"
                     /coverage="99.0"
                     /evalue="3.54e-37"
     Typing          1347..2044
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.283"
                     /coverage="99.0"
                     /evalue="4.79e-166"
ORIGIN
        1 agatcaggca gccatagcca aacgtctaag ccacgcagtg aacgatggct ttgcaggaac
       61 catcgctatg gcctctcaga gcgcccagaa tgcaaaaaga gcgcgcgagc tacagaagac
      121 tatggattcg cagcagaaac gcctacagag cgttacagag ccttttaagg ggctttccag
      181 agagcagatg acagaaatcc tgatgatggc tcagcggttt aagcagcaaa accaggagaa
      241 ggagaaacag cagcgtgttg aacgtgagaa acagcgacag atgcgatcgc gtggcatggg
      301 cggtatggag cgttagtttt gatgcgatgc aggatagggc taacgccgca aaatgacgcc
      361 atttgcggca ttccagagat caggttctgc cgccctgtat aacgctgagg ccgtttttca
      421 gtgctttttt gtggttgctg acagtacctt tccagccaaa ctgagggttc agacggtaac
      481 tgtaactgcg ccctactttt gggccttgaa gaatcacgga taggtcaatt agcgccttaa
      541 ccgaacggct tacattggtt ttctgcatac ctaaagcgtc ggcaatatcg gcttgggcaa
      601 tttggatgta attttcataa tcgagatcag ctaacagcat cattaagact ttgaattgct
      661 cccctgtgag ggtcttagca aggatcttta aagcgtcttg gttcatagtg aaatgcctct
      721 caaaagctga cttctgtttg ggtcggataa ctgcgacaaa actacctacc tcttcccctg
      781 tagcagtgtc tatctgagta attcggttac tcatttaaga ggctctccca aaaaaatagt
      841 tatcaataat gataacaacg ttatcaataa tgataactat cgtcaagcga gagccgcgcc
      901 ccacaagggc tgagagaagg ctctcttctg tatcttatag cgagaagctc atatgcccgg
      961 atagcgaacc ctattttcat cggttcgtgc gtaagcattt ctatgcccgt tcaggtgata
     1021 ttccgcttcc tcgttcaggc tgttcgttcc tcgctgcgct gcggtacgcc tcagcctgac
     1081 ctgcggcgag cggttcctgc tctttcaaaa gcgatattca ttgcctagtt tcgtcaaggg
     1141 cgagcgtagc gagtgcattt cacccttgac gacgcacaaa taaaacaggc ttggcagtgg
     1201 tgggaggtga cgcggagcga cgccttccac ctgccagacc gccgttgatt ttgaccttct
     1261 ggcagcaagc tgcccgaacg attttgcgta gcaaagtcta gtgagtacac tatcaatctg
     1321 atagtggccc gccggaggca tcgcaatgcg atcccccgac tggctggatg gacgccagaa
     1381 cgagggggta agcatggcga attacgcgat aatgcgctgc aaaaagctga cgggaatggg
     1441 cagtgtggcc agcgctttgc agcactgcta cagggagcgt gagacgccga atgctgacgc
     1501 tgaacggaca ccagaaaacc actgctctgt gtctcagtcg gcagatgagg cgatgggaaa
     1561 gctgcgggag ctgttgccgg aaaaacgccg taaagatgcg gtactggctg ttgaatacgt
     1621 tatgacggca agccctgagt ggtggaaaga agcgacaccg cggcagcagg cggagttttt
     1681 cgcccattct gagcagtggc tggagaagaa atacgggaag gatcgtgttg tggctgcggt
     1741 agttcaccgg gacgaggcca ccccgcattt gtcagcgttc gtggtgccat tgacgcagga
     1801 tggacggctg tccgcgaaag agtttattgg cgggcggtca aagatgcgtg acgatcagag
     1861 cacctacgct gaatcagtaa aaaaactggg tcttgagcgc ggcatcgagg gaagccgcgc
     1921 cacgcatcag acagttcagc actactacga atcgataaac cgtggcaccc gtagccaggt
     1981 atcgatctcg ccggaggcgc tggagccgcg tgtattgcgg aagggcattt tcaccaaaga
     2041 cgtgga
//
