LOCUS       NZ_CP032083             3319 bp    DNA     circular CON 19-JUN-2023
DEFINITION  Escherichia coli strain CT30 plasmid p.CT30-P5, complete sequence.
ACCESSION   NZ_CP032083
VERSION     NZ_CP032083.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09939627
            Assembly: GCF_018141265.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3319)
  AUTHORS   Zhuge,X.
  TITLE     Molecular Epidemiology and Zoonotic Risk of Avian-origin
            mcr-1-positive Extraintestinal Pathogenic Escherichia coli in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3319)
  AUTHORS   Zhuge,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2018) College of Veterinary Medicine, Nanjing
            Agricultural University, No.1, Weigang Road, Xuanwu District,
            Nanjing, Jiangsu 210095, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: ABySS v. 2.0.2
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 506.0x
            Sequencing Technology             :: Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/19/2023 03:03:00
            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)                     :: 5,271
            CDSs (total)                      :: 5,152
            Genes (coding)                    :: 4,904
            CDSs (with protein)               :: 4,904
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 248
            CDSs (without protein)            :: 248
            Pseudo Genes (ambiguous residues) :: 0 of 248
            Pseudo Genes (frameshifted)       :: 90 of 248
            Pseudo Genes (incomplete)         :: 169 of 248
            Pseudo Genes (internal stop)      :: 49 of 248
            Pseudo Genes (multiple problems)  :: 56 of 248
            Pseudo Genes (short protein)      :: 4 of 248
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP032083.1.
            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..3319
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CT30"
                     /host="Avian"
                     /db_xref="taxon:562"
                     /plasmid="p.CT30-P5"
                     /geo_loc_name="China"
                     /collection_date="2014"
     gene            4..117
                     /locus_tag="D2195_RS26495"
     CDS             4..117
                     /locus_tag="D2195_RS26495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001459398.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPLAAAIGN"
                     /name="hypothetical protein"
     gene            382..1422
                     /gene="lsoA"
                     /locus_tag="D2195_RS26015"
                     /old_locus_tag="D2195_28175"
     CDS             382..1422
                     /gene="lsoA"
                     /locus_tag="D2195_RS26015"
                     /old_locus_tag="D2195_28175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052606.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system mRNA
                     endoribonuclease LsoA"
                     /protein_id="WP_047938481.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HRETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     gene            1419..1799
                     /gene="lsoB"
                     /locus_tag="D2195_RS26020"
                     /old_locus_tag="D2195_28180"
     CDS             1419..1799
                     /gene="lsoB"
                     /locus_tag="D2195_RS26020"
                     /old_locus_tag="D2195_28180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052605.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system antitoxin LsoB"
                     /protein_id="WP_000710826.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     gene            complement(2034..2357)
                     /gene="mobA"
                     /locus_tag="D2195_RS26025"
                     /old_locus_tag="D2195_28190"
     CDS             complement(2034..2357)
                     /gene="mobA"
                     /locus_tag="D2195_RS26025"
                     /old_locus_tag="D2195_28190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            2642..2836
                     /locus_tag="D2195_RS26030"
                     /old_locus_tag="D2195_28195"
     CDS             2642..2836
                     /locus_tag="D2195_RS26030"
                     /old_locus_tag="D2195_28195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041620.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2367..2607)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.12e-123"
     Typing          2..154
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.26"
                     /coverage="99.0"
                     /evalue="3.6e-49"
     Typing          2866..3319
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.143"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(2038..2357)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.76e-62"
ORIGIN
        1 tgtgtgcacg aaccccccgt tcagcccgac cgctgcgcct tatccggtaa ctatcgtctt
       61 gagtccaacc cggtaagaca cgacttatcg ccactggcag cagccattgg taactgattt
      121 agaggagttt gtcttgaagt tatgcacctg ttaaggctaa actgaaagaa cagattttgg
      181 tgactgcgct cctccaagcc agttaccttg gttcaaagag ttggtagctc agcgaacctt
      241 gagaaaacca ccgttggtag cggtggtttt tctttattta tgagatgatg aatcaatcgg
      301 tctatcaagt caacgaacag ctattccgtt gacaaaaaaa caagatctgt acatattcaa
      361 aaaaaacaac ggattgaccc aatggcacag aacccgttta aagcactaaa tatcaatatt
      421 gacaagattg agtctgctct gacgcagaat ggcgtcacaa actattcctc taatgtaaaa
      481 aacgaaagag aaactcacat atctggcaca tataaaggaa tagacttctt aataaaacta
      541 atgccatcag gcggaaatac cactatcgga agagcgtctg ggcaaaataa cacttacttt
      601 gatgaaatcg ccttgattat aaaagaaaac tgtttgtatt cagacacaaa gaactttgaa
      661 tacaccattc caaaattcag tgatgatgac agggcaaatc tatttgaatt tctttctgaa
      721 gaggggataa caataacaga agataataat aacgatccta attgtaaaca ccaatatatt
      781 atgaccacca gcaatggtga cagggtcagg gcaaaaattt acaagcgcgg ctctattcaa
      841 ttccaaggaa aataccttca aatcgcgagt ttgattaacg atttcatgtg ctcaatacta
      901 aacatgaaag agattgtcga acaaaaaaat aaagaattta atgttgacat aaaaaaagaa
      961 actattgagt ccgagttgca tagcaaacta ccaaaaagca tcgataaaat ccatgaagat
     1021 atcaaaaaac agctatcatg ctcgctaata atgaaaaaaa tagatgtcga aatggaagat
     1081 tactcaacat actgcttctc tgcattaaga gccatagaag gctttatata tcaaatactt
     1141 aatgatgttt gcaatccatc atcatcaaag aaccttggcg aatacttcac tgaaaacaaa
     1201 cccaaatata taatcagaga aatacaccga gaaactataa atggtgaaat agcggaagtt
     1261 ttgtgtgaat gctacactta ctggcatgag aacaggcatg gtttgtttca tatgaaacca
     1321 ggaatagctg acacgaagac aattaacaaa ttagaatcaa tcgcaatcat cgataccgtt
     1381 tgccaattaa tagatggtgg cgtagctagg ttgaaattat gaaaaaagat aaaaaatatc
     1441 aaatagaagc aataaaaaat aaagataaaa ctttatttat tgtctatgct actgatattt
     1501 atagcccgag cgaatttttc tcaaaaatcg aatccgactt gaagaaaaag aaaagcaagg
     1561 gtgatgtttt ttttgattta ataattccta acggtggaaa aaaagatcgt tacgtctata
     1621 cgtcatttaa tggcgagaag ttttcaagtt acacattaaa caaagttacg aaaactgatg
     1681 aatataatga tttatctgag ctctcggctt cgttctttaa aaaaaacttt gataagatca
     1741 acgtaaacct tctatccaaa gccacatcat ttgctttgaa aaaaggcatt ccaatataat
     1801 atcaagccag aagacattta ccataacgtc tcattacgcg caccgccaaa acgcgctgaa
     1861 cgcgattctg acgcagacac cgcaaaaaga gatgttttcc ccggggtaaa ccggaaaaat
     1921 gcgtcaggat cgctttcagc tcactgcata gctatgcatg aaagtgaatg gcgatcggtt
     1981 tgggggctta cggcgttcat accgtctgtt ttcgacagtt tctctccggg aagttaatct
     2041 gccataagcc tggataacag ggcacggtga tactccgtaa tagcgatcag cacctccgca
     2101 tactctctgt ccccgacacg cttgccgtcg ataaagagtt ttttctgcaa cgcccccagt
     2161 cgcataactt ctttcagcac ccggtcatca gtcagtgagt taactttctt accgagagct
     2221 gccgcccgta aaaaaccaga aacggtcttg ccgcattcag cagccctttt tctgatttcc
     2281 tggtcttctt ctgccgtcag acgaacaggg cgactgatag cccgcctgcg cgtattactt
     2341 ccacttcgtt ttgtcataaa acatggctcc gtatctgaca tggggtgtcg gggcgaagcc
     2401 ctgaccaggg taattgtaat agcgtgcatg tatgcgcggt ataacaattg cacatcctgt
     2461 cctgtcagca agctcgaatt accgacaaag gcacggcagt tttttggcag tgacagtatt
     2521 gtcaggcaga aatacccgtc aaagcgtcag acggcagaat accggcggta aaacagtcga
     2581 aaagtggtac gcgatataat cacacaacgc agatgacaga cagaacggag aaaacgaaaa
     2641 gatgaacaag cagcagcaag ctgtactcaa catggcagga ttcataaaaa gccagagcct
     2701 gacgctgctc gaaaagctgg acgcactcga tgctgacgaa caggctgcca tgtgtgagaa
     2761 gctgcacgaa ctcgcagaag aactccagaa cagcatccag acacgctttg aagtagaaaa
     2821 tagcacagag agataactct caggacagga tgccgaacgg cacaacagag cgtaaggaga
     2881 aaatgtcaca taaggcgctc ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt
     2941 cgactgcggc gagcggtgtc agctcactca aaagcggtaa tacggttatc cacagaatca
     3001 ggggataaag ccggaaagaa catgtgagca aaaagcaaag caccggaaga agccaacgct
     3061 gcaggcgttt ttccataggc tccgcccccc tgacgagcat cacaaaaatc gacgctcaag
     3121 ccagaggtgg cgaaacccga caggactata aagataccag gcgtttcccc ctggaagctc
     3181 cctcgtgcgc tctcctgttc cgaccctgcc gcttaccgga tacctgtccg cctttctccc
     3241 ttcgggaagc gtggcgcttt ctcatagctc acgctgttgg tatctcagtt cggtgtaggt
     3301 cgttcgctcc aagctgggc
//
