LOCUS       NZ_CP139133             4072 bp    DNA     circular CON 06-DEC-2023
DEFINITION  Escherichia coli strain YZ22PE165 plasmid pYUYZPE165-3, complete
            sequence.
ACCESSION   NZ_CP139133
VERSION     NZ_CP139133.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38245693
            Assembly: GCF_034059795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Wang,J.
  TITLE     tet(X4)-positive Escherichia coli strains in Yangzhou
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   Wang,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-NOV-2023) Key Laboratory of Prevention and Control of
            Biological Hazard Factors (Animal Origin) for Agrifood Safety and
            Quality, Ministry of Agriculture of China, Yangzhou University,
            No.48 Wenhui East Road, Yangzhou, Jiangsu 225009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/05/2023 23:23:39
            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)                     :: 4,736
            CDSs (total)                      :: 4,616
            Genes (coding)                    :: 4,404
            CDSs (with protein)               :: 4,404
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 212
            CDSs (without protein)            :: 212
            Pseudo Genes (ambiguous residues) :: 0 of 212
            Pseudo Genes (frameshifted)       :: 57 of 212
            Pseudo Genes (incomplete)         :: 148 of 212
            Pseudo Genes (internal stop)      :: 36 of 212
            Pseudo Genes (multiple problems)  :: 29 of 212
            Pseudo Genes (short protein)      :: 4 of 212
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP139133.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="YZ22PE165"
                     /isolation_source="Pig farm"
                     /host="pig"
                     /db_xref="taxon:562"
                     /plasmid="pYUYZPE165-3"
                     /geo_loc_name="China: Yangzhou"
                     /lat_lon="32.27 N 119.29 E"
                     /collection_date="2022-06-02"
                     /collected_by="Jiang Yue"
     gene            join(3721..4072,1..1796)
                     /gene="mobQ"
                     /locus_tag="SIY76_RS23670"
     CDS             join(3721..4072,1..1796)
                     /gene="mobQ"
                     /locus_tag="SIY76_RS23670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_151140345.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLKIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGESGLAALRSQL
                     LKREEELRRKELEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQHPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGENRQPAMPSPVARRVDFTQGRLPPTLMPVM
                     SSVDRENRQLQLLLVMGVDDSLGGVVRLNGSLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADNHISPAPELMAFHLKTRETPLFAAVNTPEKQPDHLFRSLGFNHTWDEW
                     RREEHARTRVSGKKNDRDCSR"
                     /name="mobQ"
     gene            complement(2051..2758)
                     /locus_tag="SIY76_RS23675"
     CDS             complement(2051..2758)
                     /locus_tag="SIY76_RS23675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3288..3542)
                     /gene="mobC"
                     /locus_tag="SIY76_RS23680"
     CDS             complement(3288..3542)
                     /gene="mobC"
                     /locus_tag="SIY76_RS23680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(3544..3720)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3721..4072
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.717"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(2052..2758)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.294"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..1793
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.677"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgattgctga tgtggcgttc catcacatgg ataaaacaaa tccccatgcg cacatcatgc
       61 tgaccacgag ggctatcgga cctgctgggt tcagcggaaa ggtcagggac tggaacgacc
      121 ggacacatgc cgagacgtgg cgggcatcat gggctgacca tgcaaacagg gcactggcga
      181 acgccggtta tcaggaagag atagaccatc gttcatacga gcgacagggg cttgagaaaa
      241 cgcctggtat tcacctcgga aagtctgcct gtgcgatgga aacacgcggt atcgaaacag
      301 aacgcggcga acagaatcgt ctgattaaca ggcttaacct ggaaatacag atttcccgca
      361 ccgaactcag gaacagcggg ctgacagagc ctgcccgccg tgtggctgac cttctgaaga
      421 tcgggcttcc tgacaacgca acttcgtaca cactacgtga catcatcgaa gcgttgccga
      481 aggacagtaa cgcggcatgg aaactcacca gtaacgccat gtcgatgatg gcagatatgc
      541 aggcgacacg cagacgctgg gaagagctga acaccgaacg aaaggaagcg atgagccatg
      601 ctgccagcct gaaaaaatca tcgccgtttt cgtccggttt ttcccgtatt cccctgatgc
      661 aatgggctgc accggaatac cgtagtgagc agggaaaaat ccagtctctg agccagcaaa
      721 tggaaaaatt gcgacagcat taccggaagg tggagaaaca ggacattccc gcgagtcaga
      781 cggcatttga aaaacagtgg cagcagtggg gggaatccgg ccttgcagct ctcagatccc
      841 agttgcttaa acgtgaagag gaattgcgcc ggaaggagct ggaggataca gaacgtagtc
      901 gcgcggagca gctcaggaaa aatgacaatg ccgttatgga ttcaggggtg ctgagagcag
      961 tcgttacggg atatggcgag gctcccatgc ctggtaacgg ggaaatgacc tgttaccttc
     1021 tgcttcacaa ccggaacgga gaatatacgc tctgggggaa cgagctggag aaataccgca
     1081 ccaggatctt tgagagtgtt gatttaatgc gtgacaggag tggttatatc tgtgaccgaa
     1141 gcgaaatcgg tcaacatcca ccactgcaac gtgtttattc ctctgcgacc tttgagcaac
     1201 ttctgacgca ggtttgccag acatggccgc aacatacccg caatctccgc cagccgaaga
     1261 catggccgga gtctttctgt cttggagaaa accgccagcc agccatgcca tcaccggtgg
     1321 caaggagggt ggattttacg cagggacgtc tgccaccgac gctgatgccg gtaatgagtt
     1381 ctgtcgaccg ggaaaaccga caacttcagc ttttgctggt catgggcgtg gatgactctc
     1441 tgggcggtgt tgtccggctt aatggttcgc tgtatcccgc gtttgctgtc ccctccgccg
     1501 ataacaggca tctggtcatc agtgcgctga ccgataaggg gttacgatat gcaggatatg
     1561 gtgttgccgt aaatcacgat gcagacaacc acatttcacc tgcaccggaa cttatggcgt
     1621 ttcatcttaa aacccgcgag acaccgcttt ttgctgccgt caacacacca gaaaaacagc
     1681 cggatcatct gttccgttca ctgggcttta atcacacctg ggatgaatgg cggcgcgagg
     1741 agcatgcacg aacacgtgtc tccgggaaga aaaatgatcg cgactgttca cggtaactgc
     1801 tgatagtatt ttgttttgtt ttacatcgtg ttatgttctc tgacattcat cgtaactgga
     1861 tgaatgtcag atgcacacag attgcacaaa tccaacttta tcgttttccc gcccccacta
     1921 agttgggggt tctttttttt gaacgccata gaatcgatta tgaagcaatt ttatctcacc
     1981 agtagtacca tcgcatacct ctcatggaaa aaacgcaaca gagagcgttt taggtgcctt
     2041 aaaatcgatt ctagatcgtc atcttgatct gtttgtcttc cttgaagcga aaatgcaggg
     2101 ctacaaccgt gcgccccttt ttgatcgtct caaccgttac agccaggtcg ctttttttgt
     2161 tcagttcgtc aacacagggt tttattagat ccctgtttaa cgttttgaaa tctttatatt
     2221 taccatcaag catcagtgat gatttaaaat catcgagggc gataatacgt tccccagtac
     2281 tgcggaattg ctggagaatc tcgtatattc ttatgctgta acttcttgat aaattggaga
     2341 tatttttaat aacaactctg gtgaattgcc ccttcaactg tgtcagataa ggcattaccg
     2401 cgtcagaaaa agtgatttgt gctttcccct ctcccctcgc gtactgtgcc cgatactgaa
     2461 tccagcggaa ctcctcgcgc ttctcgtcgt ccttgagaat gatcgacctg tcccacaaac
     2521 gatcgatcgc ttcctgtagc tgaacctcgg catttttccg ccccatatca gggaatgaat
     2581 caaaatattc cgcagctgta atggtcattg tcttttgcaa ttcaggtgaa gctacgtcag
     2641 taccggagtt aagtcggctt atgcagagca ataagaaacg ctgttcttgt aaagttagct
     2701 tgtaactggc ctcaaccagc gcattggact tataggctat cagagggttt gatgtcattt
     2761 taaccaccag gccaaagatg aggtgagata aaaacctatc acctttagca ttggtgagca
     2821 attatatttc caccccccat ttttctgtga atattacctt aaatctcctc acctttacct
     2881 taaattacct cacccaagaa ccttaaatta tatcaccttt accttaaatt tccccaccta
     2941 tacacgtgta acgcattgtt tttaatcagg aatttcgacc ctaaaacaag tattaaaaac
     3001 aagtattaaa aacaagatct aaaaacttaa cggcgagcct gtggataact tggagtgctg
     3061 aaaataaaaa cccaataaaa acaatgtgtt gcaaaaaatc aggattggag attccgaata
     3121 ccccccctcc aaccctgtgg aaatccagta ttcatgcggg ttcagcgcat atcacctgtc
     3181 gaaaaaccgt gcgtatgtgc tcaacatggc gactgattca cttccgcttc ctcgcccact
     3241 cgctcgctaa cgctcggtcg ctgggctgcg gcgagcggac gatacaatca ctgttctggc
     3301 agcgcctcca gctcgttaat cagcggcagt atgcgcgtca catcagcctg tcgtgtcacc
     3361 tctgccttca ggaactggag taaccaggca cgcaactgca cctcctccgg ctttctgacc
     3421 tttgccagca atgcagcacc cacaacaacc ttctgcgctg tgtccaggct ccggctcttc
     3481 gccttcaggc gctgtaatct cgcctcagca tcagcaatct tctgttcgag cgttctgctc
     3541 atgatgtaac tccgtgcgcg atgaaaaatc gcattttagc gcgtcactgg tagtttaaaa
     3601 actgagctgg cataatgcac ggcaaatcac gaagtgcgca cttatacaat ctccactccg
     3661 tttcgattgt gtgcgccctg cggggctgaa agaaaactac aaaaaggcat tacggcagaa
     3721 atggcgattt atcatctcag catgaaaatt atctccagaa gcagcggcta cagcgccgta
     3781 gcttccgctg cctatcgttc cggttcactg atgcttgatg agcgtaccgg actgactcac
     3841 gactacaccc gcaaaagcgg tgtggctgag gctgtgattc tgacccccgc caccgcccct
     3901 gcctggtgta cgaaccgtgc cgaactctgg aatgccgttg agaaggccga acgccggaag
     3961 aactcacaac ttgcgcggga aattgaactc gccatccccc acgaactgcc gcaggatgcc
     4021 gcccgggaaa ccgttctcgc ctttgtcaga gaaaactttg tcagtcaggg ca
//
