LOCUS       NZ_CP089141             3066 bp    DNA     circular CON 21-FEB-2024
DEFINITION  Escherichia coli strain XD35 plasmid pXD35008, complete sequence.
ACCESSION   NZ_CP089141
VERSION     NZ_CP089141.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17183821
            Assembly: GCF_019375055.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3066)
  AUTHORS   Peng,Z.
  TITLE     Antimicrobial resistance and population genomics of multidrug drug
            resistant Escherichia coli in pig farms in mainland China: a
            national wide epidemiological and microbiological study
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3066)
  AUTHORS   Peng,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-DEC-2021) College of Veterinary Medicine, Huazhong
            Agricultural University, NO.1 Shizishan Street, Wuhan, Hubei 430070,
            China
REFERENCE   3  (bases 1 to 3066)
  AUTHORS   Peng,Z., Chen,H. and Wang,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-JAN-2021) College of Veterinary Medicine, Huazhong
            Agricultural University, No. 1 Shizishan Street, Wuhan, Hubei
            430070, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. v1.5
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1052.02x
            Sequencing Technology             :: Oxford Nanopore PromethION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/21/2024 03:28:59
            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)                     :: 5,403
            CDSs (total)                      :: 5,284
            Genes (coding)                    :: 4,970
            CDSs (with protein)               :: 4,970
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 314
            CDSs (without protein)            :: 314
            Pseudo Genes (ambiguous residues) :: 0 of 314
            Pseudo Genes (frameshifted)       :: 91 of 314
            Pseudo Genes (incomplete)         :: 226 of 314
            Pseudo Genes (internal stop)      :: 46 of 314
            Pseudo Genes (multiple problems)  :: 50 of 314
            Pseudo Genes (short protein)      :: 5 of 314
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP089141.1.
            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..3066
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="XD35"
                     /db_xref="taxon:562"
                     /plasmid="pXD35008"
                     /geo_loc_name="China: Henan"
                     /collection_date="2019-10"
     gene            complement(851..1384)
                     /locus_tag="K0768_RS03350"
                     /old_locus_tag="LS330_03350"
                     /old_locus_tag="LS330_RS03350"
     CDS             complement(851..1384)
                     /locus_tag="K0768_RS03350"
                     /old_locus_tag="LS330_03350"
                     /old_locus_tag="LS330_RS03350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168772.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(1387..2313)
                     /locus_tag="K0768_RS03355"
                     /old_locus_tag="LS330_03355"
                     /old_locus_tag="LS330_RS03355"
     CDS             complement(1387..2313)
                     /locus_tag="K0768_RS03355"
                     /old_locus_tag="LS330_03355"
                     /old_locus_tag="LS330_RS03355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_014342223.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGYDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2490..2888
                     /locus_tag="K0768_RS03360"
                     /old_locus_tag="LS330_03360"
                     /old_locus_tag="LS330_RS03360"
     CDS             2490..2888
                     /locus_tag="K0768_RS03360"
                     /old_locus_tag="LS330_03360"
                     /old_locus_tag="LS330_RS03360"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_106645285.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDSILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     Typing          complement(1391..2313)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttggtgagcg ttctgaggaa ccggcaaact ccccccccac cccgcaaagg gcgtaaaagg
       61 gggtaagagt tttgcccgcg cgatatgctg gccggagccg cgcccatcgt caccggaacg
      121 gacctatggt agaacgtccg tttgcatgtt cccgcgtcta cgccgcgaca tttcgcccaa
      181 catgctggca ctggtcccag aaccgcgccc aagggcaaaa acccaatata agcgcattac
      241 attcaaccac ttgtgccact ccccaggcgt ccgctcaaaa atgaagtatc ttccccggta
      301 gcggaattct cacgcgtgcg gtcgccgtcg tcactgaccc cccaaccgca aacggccttt
      361 gcaaacacgc aacaagtgcc tgcaaaaaca ggttttttcg ggattcctgg gagactgtgc
      421 ggcgggaaaa ttcttgaaga atacagaagg ttcatgcaaa ctgaatgaac tggtttctgt
      481 cgctgcgaac aacagactcc acaggaacat tgaggaggtc gaaaacctca atgaacccga
      541 agaagctcgc ctaatggcgg gcttttttcg ttctactcgc cttcaacgaa acaagcaagt
      601 ccaaaaacgc aatttgagcg cgatagcaca tcaaatctac aaaaaacgca ctttcacccg
      661 accaaacagc caaaaacgca ccagaaacgt ttttacgcgc ctgaataact attcacgaaa
      721 gcaatgcgcg atctgtttcg agcgttcaga agggcgaacg ggtcaaaaca gcaaactttc
      781 tcatcagaaa acggtgaacg ggacgcggaa ttttttcgcg ggtcgtgagg cgttggacaa
      841 gcgaagcgcg tcagtttttc cggctcttgc ccgtgacagg tttctccgcc agtttatctt
      901 ccagtgtcac aactttctga tacaccgccg ctgtggcgtt gtagttcctg tcgagcattg
      961 ttttcattcc ccatccaagc acacagaaca taaccagaaa agccactgac accccaccca
     1021 gccatttcca gctataccct ttaagggtgt tgtattcctg cacgatattg ctgtgaattg
     1081 tcgcaatatc cctgttcagg gcatccgcgt ttgccttcat gtttgcgact gactcttcca
     1141 gccgctgaaa atcctggctg atgcgctcac ctatcagccc tgcaacatcc agcttctgca
     1201 cctcgtttct gacttcatcc ctgacctgtt ttgccacacc gtcagaaata tcccgatatc
     1261 cgcgaagtgt ttcccttgcc acagccagag aatcagcaac agctttctgt tgctccattg
     1321 cggtatgttg cagatgctcc accgataaca ggagcgtgag taatttttct tctgtgctgg
     1381 ccatgttcag aatcccatag aaaatccacg tgacggtgat ttaacccgtt caggttcagt
     1441 tcggttctgt ctgctcactc tgtctctcat gtcaaagcca tgctcccgcg caacatcatg
     1501 ttgcagcctt ctaaccagtt catgttgctt aaccggagtg tccagccatt ccctgatgtc
     1561 atacccgacc gttcgcgcct gttcaagatg gcgggaatag tccggttcag accgtttttg
     1621 catgatgtca tgacgctggg catcatcaag ccgtccggca gcttcaaaac ccagatgcac
     1681 ttcgggacgt cgttcaatgc cctgttcttt cagcgtccgg cagtcaatga agcccctttc
     1741 aaagccatgc tttctcatat gttcgttgtg cttcacctcc cagcgttttc gcaattcccg
     1801 caactgctct ttttgctgag tgagagtcag gcttccggaa tcctttttcg cacctccccg
     1861 ctcgggatac ctggcgttat agcgccggaa atactgttcc ggtgtacgtt caatgccatc
     1921 attcacacgc tggctcatca tgatatgcgc atgaggctgt tcgccgccgt caatgctcgc
     1981 tttcggattg tgaatggcaa aactccaggc gtgccgttcg ccagcttcct gacgtacaaa
     2041 atcctgcacc agttcaaggc gctgttccgc tgtcagttca cggggtaatg caatttcaag
     2101 ttcccgatag gtcgaaccgt tcgcacgttc aaactggtca gcagcctgcc agaaatgtga
     2161 gggattatct cgcgcccatt ccggcatgtt tccgtgtgcg gaatattcca aatcctgacg
     2221 gtcgcggtat ttctctttgc gctcgatgta atcggcgtgg tttgcagcct gccccttgcc
     2281 accaaattta acgctgaggt gataggttgc cacggtttca gccctccgca ggagcgcact
     2341 gtttctcgac gaaggagaga aacatataag tgcgcttcct tctaatttta cgaattagca
     2401 cggaagatac cccctgcacc cgccgaccgc aagcgatata ctgcacgacc acaacacacc
     2461 gcaaaaaaac accagggagc accacgaaca tgcgcatcag caacatcgaa tggctgaaga
     2521 aacggatcgg attcatcagg aagctcggag aacagaccgc acgacagaga cagattattg
     2581 acctgctcga caacgaagca ggactcacag aacaggaacg caaactcctc cacgtactgg
     2641 caacagcgga aaaaaacgac ttacaggcac aggagagcga acgaaaacag gcggtccaaa
     2701 aacgaatcga gggaaaaaaa caacgacgag aacgcaatca ccgactcttt ctcgcggctg
     2761 ggctactgat cgaagcagga ctggtagaca caaaaacagg cgagctatgc tataaaaaag
     2821 acagtatatt acaggcactt aaggaaatta agtacgatct ggagacatcc ccaaacccag
     2881 acgcgtaagt gcctccatcc gtgttccggt tcacttccgc ttcctcgccc actcgctcac
     2941 tacgttcggt cgctggggct gcggcgagcg gagtgatctc tctctcgatc ctgtggggat
     3001 cttttttttt tttgcggtag agcagtctgt gattgcggtg cggcaggggg ctgtgccata
     3061 tgctgg
//
