LOCUS       NZ_CP119583             3240 bp    DNA     circular CON 04-SEP-2023
DEFINITION  Escherichia coli strain C012_chr plasmid pEC012-6, complete
            sequence.
ACCESSION   NZ_CP119583
VERSION     NZ_CP119583.2
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33688535
            Assembly: GCF_029278625.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3240)
  AUTHORS   Wang,Z., Wang,S. and Guo,W.
  TITLE     Genomic characteristics of mcr-1, TEM-176 and blaCTX-M-14 in a
            single multidrug-resistant Escherichia coli ST457 from Broiler in
            China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3240)
  AUTHORS   Wang,Z., Wang,S. and Guo,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-APR-2023) 402, Shanghai Veterinary Research Institute
            Chinese Academy of Agricultural Sciences, Ziyue Road No. 518,
            Shanghai, Shanghai 201100, China
  REMARK    Nucleotide sequence updated by submitter
REFERENCE   3  (bases 1 to 3240)
  AUTHORS   Wang,Z., Wang,S. and Guo,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-MAR-2023) 402, Shanghai Veterinary Research Institute
            Chinese Academy of Agricultural Sciences, Ziyue Road No. 518,
            Shanghai, Shanghai 201100, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 26-OCT-2022
            Assembly Method                   :: HGAP v. v4; CANU v. v1.7.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 219.0x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/02/2023 08:01:26
            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)                     :: 5,226
            CDSs (total)                      :: 5,102
            Genes (coding)                    :: 4,879
            CDSs (with protein)               :: 4,879
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 223
            CDSs (without protein)            :: 223
            Pseudo Genes (ambiguous residues) :: 0 of 223
            Pseudo Genes (frameshifted)       :: 69 of 223
            Pseudo Genes (incomplete)         :: 139 of 223
            Pseudo Genes (internal stop)      :: 44 of 223
            Pseudo Genes (multiple problems)  :: 31 of 223
            Pseudo Genes (short protein)      :: 4 of 223
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP119583.2.
            On Sep 4, 2023 this sequence version replaced NZ_CP119583.1.
            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..3240
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="C012_chr"
                     /isolation_source="liver"
                     /host="broiler"
                     /db_xref="taxon:562"
                     /plasmid="pEC012-6"
                     /geo_loc_name="China: Fujian"
                     /collection_date="2015"
     gene            1..1533
                     /locus_tag="P1J04_RS26125"
                     /old_locus_tag="P1J04_28180"
     CDS             1..1533
                     /locus_tag="P1J04_RS26125"
                     /old_locus_tag="P1J04_28180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017899153.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NERD domain-containing protein"
                     /protein_id="WP_020244555.1"
                     /translation="MKKSVVRQVLEMSGPCISSDLAERIQWQYPSMSPEAIRKMISRST
                     DIGKLPFLKFSHNRRFIYLKDDFGSFKFWRALEKCMYEANSTYSHAILAVINNGGYLKV
                     KDFGIVSGSPIKQAKHLSYETVLRNLLSAKILRAVYIDGVGDCVLINNNIANDVNIRTM
                     ANCESFFDKPIFELVKAWLRNLGLVAFNQIKTKYDGEGNPVVGSFEWDMTAPSYVSPLA
                     EYVGGKLMPGFVACDFSLGFNRDEITTAAAETFIRKVQMTKSSRASQRIMFVIFARRFG
                     KIAFNKLRSEGVLAVTIANAFGNKVDESLTRLSRVVQGSLSIEKHPDELLQMVKDLESV
                     SGENGNLRGYVFELFVSSQISNFYGLGNIYINREYKINGKHAEADVVLESSDDIYIIEC
                     KNVKVLPSTELTRWMKERVPIINSYYKINNLEKKNIHHYLWVTGNVYNKDLKRLDSFKN
                     NNKNIDVDYLFGEHLDDFFYKKKRVFNLYRKVISPDYKKGVMPDFELEDDFF"
                     /name="NERD domain-containing protein"
     gene            complement(1722..1880)
                     /locus_tag="P1J04_RS26130"
                     /old_locus_tag="P1J04_28185"
     CDS             complement(1722..1880)
                     /locus_tag="P1J04_RS26130"
                     /old_locus_tag="P1J04_28185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001403044.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKTPLAAAIGIWFTERRGV
                     YKHTQSS"
                     /name="hypothetical protein"
     Typing          complement(1582..2062)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.344"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 atgaaaaaaa gtgttgttag acaggtgctt gaaatgagcg ggccatgcat ctcttcggat
       61 cttgcagaga gaattcagtg gcaatatccc tcaatgtccc ctgaagcgat acgtaaaatg
      121 atctcgcgaa gcacggacat aggtaagctg ccatttttga aattcagcca taacaggaga
      181 ttcatttatc taaaagatga ttttggcagt ttcaaatttt ggcgagctct cgaaaagtgc
      241 atgtacgaag caaactcaac ttactcacac gcgatacttg ccgtaataaa taatggcggt
      301 tatttgaagg tgaaagattt tgggattgtg tctggatctc ctataaaaca agctaaacat
      361 ttaagttatg aaacagttct aagaaatcta ctttcggcaa aaatacttag agccgtgtat
      421 attgatggag ttggtgattg cgtactgata aataacaaca tagccaacga tgttaatatt
      481 agaacaatgg caaattgcga atcctttttt gacaaaccaa tatttgagct tgttaaagct
      541 tggttgagga atttaggcct agtcgctttt aatcagataa aaacaaaata tgatggggag
      601 ggaaatccag ttgtaggctc ttttgaatgg gatatgaccg ctccaagtta cgtttcccct
      661 ctcgctgaat atgtcggcgg aaaactgatg cctggtttcg ttgcctgtga tttttctctc
      721 ggctttaatc gtgatgaaat tactaccgct gcagcagaaa cattcataag aaaagtccag
      781 atgaccaagt cttctcgagc gagtcagagg ataatgtttg ttattttcgc aaggcgtttc
      841 ggcaaaatag ccttcaataa gttgagaagt gagggggttc tggctgtaac tatagcaaat
      901 gcgtttggta ataaagttga tgaaagctta accaggttgt cgagggtggt tcagggttct
      961 ttgtccattg aaaagcatcc agatgagttg cttcagatgg ttaaagatct ggagtctgtt
     1021 tctggagaga atggcaattt gagagggtat gtttttgagc tttttgtatc ctcgcaaatt
     1081 tctaattttt atggccttgg taatatttac attaatagag agtataagat aaatggtaag
     1141 catgcagaag ctgatgttgt attggagagt agtgacgata tttatataat agagtgcaaa
     1201 aatgttaagg tcttaccttc aactgaactt acgcgttgga tgaaagaaag ggttccaatt
     1261 ataaactctt actataaaat aaataattta gaaaaaaaga atatccacca ttatttgtgg
     1321 gttacaggga atgtgtacaa caaagattta aaaaggttag actcttttaa gaataataat
     1381 aagaatatcg atgttgatta tttgtttggt gagcatttgg atgatttctt ttacaagaaa
     1441 aagcgggtgt tcaacttata tagaaaagtc atttcacctg attataaaaa aggcgtaatg
     1501 cctgattttg agttagagga cgattttttc tagctactgc gtttcttgac gatggcgctt
     1561 tgaaaggcgt atcttccatc tctgaaacga aaaaaccacc cggcaaggtg gtttttcgaa
     1621 ggttcaggaa accggcaagt ttctgaaccg tggtaactgg cttaaacgga gcgcagtgac
     1681 caaatctgtc cttccagtgt agccgtagtc aggtcaacac ttcaagaact ctgtgtatgc
     1741 ttgtacacgc ctctccgctc cgtaaaccag ataccaatgg ctgctgccag tggcgttttg
     1801 tcgtgtcttt ccgggttgga ctcaagtcga tagttaccgg aacaggcgca gcagtcggac
     1861 tgaacggggg gttcgtgcat acagtccagc ttggagcgaa ctgccttccc ggaactgagt
     1921 gtcaggcgtg gaatgagata aacgcggcca taacagcgga gtgacaccgg taaaccgaaa
     1981 ggcaggaaca ggagagcgca cgagggagct accaggggga aacgcctggg atctttatag
     2041 tcctgtcggg tttcgccacc actgatttga gcgtcagatt ctgtgatgct tgtcaggggg
     2101 gcggagccta tggaaaaccg gcaacgccgc ggcctttctt gttgcttctc cattctctct
     2161 cattgcctat ggcttaatgt ctctgttccc tccgctcgcc gcagccgaac gaccgagcgg
     2221 agcgagtcag tgagcgagga agcggaatat ctgcgggctt ctctttggca ccgtacgcgc
     2281 catagctgca ttttttaata cgatgcagga tagggcgaac gccgcaaagt gacgtcacct
     2341 gacgttcctg gattacaaag gttaaagcag cggacaggaa atgttttgtg gctacacgac
     2401 agcgggacaa gatgtatttt tggagtaccg ccggcacgcc aatgactcct ggtcaggttc
     2461 cgcccgacac cgtatgtttg ctactttttt gctatttttt tgctatcttt ttgctatttc
     2521 aggggccttt gagcctttcg gttgctctcc ttttgctatc tttttgctac ttttttgcta
     2581 tcggactgct accactctct ttttgcgctc cataaacaag gcacgttagc gatgtataca
     2641 tcgccgcgcc gcaagggtgc cccttccgaa tcccgttcat cactgtgtgc tgattaatcc
     2701 aggttaaatc cgaccccctt agcaataaat cctgccatgc ctgacggcct ggccaacgcc
     2761 tcacggtcgc acagtaaact gcgcaccctt tcaccgttat cggtggggtt cgtggtggct
     2821 ttcagggcgc tcgccggatt ttagccgcta aaatgacgtc catgcgttcg tatgcatagc
     2881 catgcagacg cgaagaaatc atcaggcgcg ttttttcacg atatggacag ggaaagatgc
     2941 cggaaatagg caggagggcg cagaaatgct ctgagggcgt ctgagatggt gcacgcaacg
     3001 gatgttatgg taaatggagt agctgatagt tcgataaaaa aatgtcacaa tactatcttt
     3061 atgatttaaa aggattaaat aattataaag acgatatttc tttgtgctca atttaaagta
     3121 agtaattaac catctgattt ttaattattt tttatagtca ctttttttta aaagactgcg
     3181 ccctattaca cgtagtgtaa tattataaat agcgtagtgt gacagaaata aggtgaggat
//
