LOCUS       NZ_CP034740             6767 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain L65 plasmid pL65-4, complete sequence.
ACCESSION   NZ_CP034740
VERSION     NZ_CP034740.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10623993
            Assembly: GCF_003999795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6767)
  AUTHORS   Liu,Z., Li,Y., Li,R., Xiao,X. and Wang,Z.
  TITLE     Emergence of NDM-5 prouducing Escherichia coli from a goose farm in
            Jiangsu, China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6767)
  AUTHORS   Liu,Z., Li,Y., Li,R., Xiao,X. and Wang,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-DEC-2018) Veterinary, Yangzhou University, 88
            University South Road, Yangzhou, Jiangsu 225009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. 4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003999795.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 04:15:22
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,857
            CDSs (total)                      :: 4,739
            Genes (coding)                    :: 4,575
            CDSs (with protein)               :: 4,575
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 164
            CDSs (without protein)            :: 164
            Pseudo Genes (ambiguous residues) :: 0 of 164
            Pseudo Genes (frameshifted)       :: 73 of 164
            Pseudo Genes (incomplete)         :: 88 of 164
            Pseudo Genes (internal stop)      :: 39 of 164
            Pseudo Genes (multiple problems)  :: 30 of 164
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP034740.1.
            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..6767
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="L65"
                     /db_xref="taxon:562"
                     /plasmid="pL65-4"
                     /geo_loc_name="China"
                     /lat_lon="32.40 N 119.40 E"
                     /collection_date="2018-05-28"
                     /collected_by="Ziyi Liu"
     gene            join(5997..6767,1..373)
                     /locus_tag="EM854_RS24065"
                     /old_locus_tag="EM854_24065"
                     /pseudo=""
     CDS             join(5997..6767,1..373)
                     /locus_tag="EM854_RS24065"
                     /old_locus_tag="EM854_24065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000027427.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="ISAs1 family transposase"
                     /name="ISAs1 family transposase"
     gene            403..855
                     /locus_tag="EM854_RS24070"
                     /old_locus_tag="EM854_24070"
     CDS             403..855
                     /locus_tag="EM854_RS24070"
                     /old_locus_tag="EM854_24070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247180.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000960005.1"
                     /translation="MLVGAAVGAVVIGGGIVIYNNREAVGDAIEKSMEMRGEAELLNAQ
                     SQMEFWRDPYGAFSSVFGNDDSSKENPNVGKDLTDEEKNCLGSGSTGGSGGWEPDEDGE
                     IRNTYRSIKDAPQYPRGFRNVQNGTTRNVVKDQQLLKQLRKVDSGK"
                     /name="hypothetical protein"
     gene            1121..1315
                     /locus_tag="EM854_RS24075"
                     /old_locus_tag="EM854_24075"
     CDS             1121..1315
                     /locus_tag="EM854_RS24075"
                     /old_locus_tag="EM854_24075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001351461.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3969 family protein"
                     /protein_id="WP_000990552.1"
                     /translation="MNAASHSKNLIDIIDSGCELEDISSIIPENLSGNIDKLINQTLDF
                     IRGAPDFGGAVDKEIILVK"
                     /name="DUF3969 family protein"
     gene            1396..>3701
                     /locus_tag="EM854_RS24715"
                     /old_locus_tag="EM854_24080"
                     /pseudo=""
     CDS             1396..>3701
                     /locus_tag="EM854_RS24715"
                     /old_locus_tag="EM854_24080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_308587.2,RefSeq:NP_418050.1"
                     /note="frameshifted; internal stop; incomplete; partial in
                     the middle of a contig; missing C-terminus; Derived by
                     automated computational analysis using gene prediction
                     method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6531 domain-containing protein"
                     /name="DUF6531 domain-containing protein"
     gene            complement(3847..4299)
                     /locus_tag="EM854_RS25050"
                     /old_locus_tag="EM854_24090"
     CDS             complement(3847..4299)
                     /locus_tag="EM854_RS25050"
                     /old_locus_tag="EM854_24090"
                     /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_127528490.1"
                     /translation="MKFFAPGCIPPPSARPSVPPSARTAQATGGFHCTHAALRAVSRSS
                     LSSITASSAGNTTPSRPRSLLLSPPPSCGAALRLFTVLCFDSQERREAPRLVHRLDTRG
                     VGLYRRQPVAVPAVPCHLRFTRQRHPPVRSRSRRHTRFAIRRPSGS"
                     /name="hypothetical protein"
     gene            4413..5219
                     /locus_tag="EM854_RS25055"
                     /old_locus_tag="EM854_24095"
     CDS             4413..5219
                     /locus_tag="EM854_RS25055"
                     /old_locus_tag="EM854_24095"
                     /inference="COORDINATES: protein motif:HMM:TIGR03696.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RHS repeat-associated core domain-containing
                     protein"
                     /protein_id="WP_127528491.1"
                     /translation="MRSTFNQSPVCRGSSMMRESGLYYNRNRYYDPLQGRYITQDPIGL
                     KGGWNLYAYPLNPVQRGDPLGLSGETLVLGSATTVTGTKFGGALLSGGAATFDAVTTAM
                     ASAAPALGAMAVVAGPMGYDLLANDGRAGKALSDGQLINSQAEMCYWTSSCPLDSPHEN
                     DNSSGSQPNVGKDLTDEEKNCLAGGSAGSPGGWGPEDEEKARSRGRGSDTEAKIKDLDL
                     LHSPETIGSRPDLAKLTDSELLESVINPKSGDRVTVNTKTNKSNGW"
                     /name="RHS repeat-associated core domain-containing
                     protein"
     gene            5328..5585
                     /locus_tag="EM854_RS24100"
                     /old_locus_tag="EM854_24100"
     CDS             5328..5585
                     /locus_tag="EM854_RS24100"
                     /old_locus_tag="EM854_24100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000786991.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000786991.1"
                     /translation="MKNEFILMKLVARGLLDIRIAADSGNVKACHMLSDFIHTLPYAIE
                     RVLKGEIDYQYVMDNLNERAKIKNMEGWLANALRDINASE"
                     /name="hypothetical protein"
ORIGIN
        1 ggctgaaaga aaattatgcg tggcagtctc ctttcggtca ataatagcag aacaaaagaa
       61 agagcccgaa atgacggtca gatattatat cagttctgct gatttaaccg cagagaagtt
      121 cgccacagca atccgaaacc actggcacgt ggagaataag ctgcactggc gtctggacgt
      181 ggtaatgaat gaagacgact gcagaataag aagaggaaat gcagcggaat tattttcagg
      241 gatacggcac attgctatta atattttgac gaatgataag gtattcaagg cagggttaag
      301 acgtaagatg cgaaaagcag ccatggacag gaactatctg gcgtcagtcc ttgcggggag
      361 cgggctttcg taatcttgcc ctgggtagga ggccctccag ggatgttagt cggtgcggca
      421 gttggagcgg tggttattgg tggtggtata gtaatataca acaatcgcga ggctgttggg
      481 gatgcgattg agaaaagtat ggagatgcgg ggtgaagccg aattattaaa tgcacaaagt
      541 caaatggaat tctggcgaga tccctatggt gctttttcca gcgtgtttgg aaatgatgat
      601 tcatcaaaag agaatccaaa tgtcgggaag gatttgacgg atgaagagaa gaactgtttg
      661 ggcagtggca gtacaggagg ttcgggaggg tgggagccag atgaggatgg cgaaataaga
      721 aatacctaca ggtctattaa ggatgctcct cagtatccca gagggtttag gaatgtccaa
      781 aatggcacta caaggaatgt tgtaaaggat cagcagttat tgaaacaatt acgtaaagta
      841 gattcaggaa aatagagtaa agtttataaa gatggatttg atgcgtcagg tcgaaaagtg
      901 tccattcact attttgaaag tcagagtggt cgagtattta atgtaaaagt aaaaccttat
      961 tggagtaatt tataatgaga attgattata gtattagcaa tgaacacgca gagaaattta
     1021 tcagtctttt agtgttgggt gttttatatt ctattgaaaa aaagcaatat ctatagatga
     1081 ggcagaaggt tttatattta agccatctac gtcaaaaaca ttgaatgctg catcgcactc
     1141 taaaaactta attgacatta tagattctgg ttgtgagctt gaagatatat ctagcatcat
     1201 tcctgaaaat ttatcaggta atattgataa attaattaac cagacgctgg attttattcg
     1261 aggtgctcct gattttggcg gtgcagtcga taaggaaatt attttagtca aataaaaata
     1321 tatcgttaat atatgttggt gatgttttgt tgagggcttt tttattgtta gtggtataaa
     1381 tataagggag tgagaatgag cggaaaaccg gcggcgcggc agggcgacat gacccgcaag
     1441 ggactggata ttgtgcaggg ttcagcaggg gtgctgatag gcgcgccgac gggggttgcc
     1501 tgctcggtgt gtcctaaaaa aaaggacagt ccaaattatg gcaacccggt gaacccggtg
     1561 ctgggtgcaa aggtgctgcc gggcgagacg gacattgcgc tgcccggccc gctgccgttt
     1621 attctttccc gcgcctacag cagctaccgg accagaacac ccgcgccggt gggggtgttt
     1681 ggtcccggct ggaaagcgcc cttcgatatc cgcttacaga tacgcgatga aggcctgata
     1741 ctcaacgaca gcggcggcag gagcattcac tttgagccgc tgtttcccgg cgagataagc
     1801 tacagccgca gcgagtcact ctggctggcg cggggcggag tagcggcgca gcacagttcg
     1861 cagccgctaa gcgcgctctg gcaggtgctg ccggaagatg ttcgcctgag tccgcatgtg
     1921 taccggcgac aaacagcctt caggggccgt ggtggatact cagctggccg gagcgggtgc
     1981 cggggcggac gaggtgctgc cgccggagcc gcccgcatac cgggtgctga cgggcgtggt
     2041 ggacggcttc gggcggacgc tggcctttca ccgggcggcg gagggtgatg tggcgggcgc
     2101 ggtgacgggg gtgacggacg gcgcgggccg ccgttttcac ctggtgctga ccacacaggc
     2161 gcagcgggcg gaagccttcc gtaaacagcg cgcctcttcc tttatcttcc ccggccagtc
     2221 cccgttctgt ttcctcttct caggttttcc ccgacacgct gcccgccggt acagaatacg
     2281 gtgccgataa cggtatccgg ctggaggcgg tgtggctgac acacgacccg gcatacccgg
     2341 atgaacagcc gactgcgccg ctggcgcgct acacgtacac ggccagcgga gaactgcggg
     2401 cggtgtatga ccgcagcggg aacgcaggtt cgcgggttta cttatgatgc ggagcacgcc
     2461 gggcggatgg tggcgcacca ttatgcgggg aggccggaga gctgctaccg gtatgatgat
     2521 accggtcggg tgacggagca ggtcaacccg gaggggctgg actaccgctt tgagtacgga
     2581 gagagccggg taatcatcac ggacagcctg aaccggcggg aggtgctgta cacggaaggc
     2641 gagggtggcc tgaagcgggt ggtgaagaag gagcatgccg acgggagcat cacccgcagc
     2701 gagtatgatg aggcggggag gctgaaggcg cagacggatg cggcggggcg gcggacggag
     2761 taccggctgc atatggcgtc gggcgcggtg acagcggtga cggggccgga cggcaggacg
     2821 gtgcggtatg gctataacag ccagcggcag gtgacgtcag tgacgtaccc ggacgggctt
     2881 cgcagcagcc gggagtatga tgagagggga aggctgacgg cggagacctc gcgcagcggt
     2941 gagacaacgc ggtacagcta tgatgacccg gcgagtgagc tgccgacagg gatacaggac
     3001 gcgacgggca gtacaaaaca gatggcatgg agccgttacg gtcaactgct ggccttcacg
     3061 gactgctcgg ggtacacgac gcggtatgag tacgaccggt acggtcaaca aaccgccgtt
     3121 caccgggaag aaggcatcag cacttacagc agttataacc cgcgcggtca actggtcagt
     3181 cagagggatg cgcaggggcg ggagacccgt tatgagtaca gcgccgcagg cgacctgaca
     3241 gcaacggtat caccggacgg taaacgcagc accatcgaat atgataaacg cgggcgtccg
     3301 gtgagtgtga cggaaggcgg tctgacgcgc agcatgaggg tatgacgctg ccgggcgcat
     3361 caccgtgctg accaacgaga acggcagcca gtccacgttc cggtatgacc cggtcgacag
     3421 gctgacggag cagcgcggct ttgacggccg gacgcaacgt taccagtatg acctgaccgg
     3481 aaaactcacg cagagtgaag atgaggggct tatcaccctc tggcattacg atgcgtcgga
     3541 ccgtatcacc cggcgcacgg tgaacggtga acccggcgga gcagtggcag tatgacgacc
     3601 acggctggct gacagaaatc agccacctga gtgaaggcca ccgtgtggcg gtccactacg
     3661 gctatgacga taaaggccgt ctgacgggcg aacggcagac tgacggagaa gacggaccgc
     3721 atcccggacg ggtgtgatac ggacggacga cgagcggacc caccactacc actacgacag
     3781 ccagcaccgc ccggtgttct acacgcggat acagcatggc gagccactgg tcgagagccg
     3841 ctacctctac gacccgctgg gacggcgaat ggcgaaacgg gtatggcggc gggagcgtga
     3901 cctgacgggt ggatgtcgct gtcgcgtaaa ccggaggtga catggtacgg ctgggacggc
     3961 gacaggctga cgacgataca gaccgacacc acgcgtatcc agacggtgta ccagccgggg
     4021 agcttcacgc cgctcctgcg aatcgaaaca gagaacggtg aacaggcgaa gcgcagcacc
     4081 gcagctcggc ggaggtgata gcaggaggga gcgaggacgg gacggcgtgg tatttccggc
     4141 ggagctggcg gtgatgctgg agaggctgga gcgggaaact gcgcgcagag ctgcgtgagt
     4201 gcagtgaaag ccgccagtgg cttgcgcagt gcgggctgac ggcggaacag atggccgcgc
     4261 agatggaggc ggtatacatc ccggagcgaa aaacttcatc tttaccactg tgaccaccgg
     4321 ggactgccgc aggcgcttat cagcccggaa gcgggaaacg gcgtggtgcg cgggagtatg
     4381 acgaatgggg caaacctgct gagcgagaac cagtgcgcag caccttcaac cagtcacccg
     4441 tctgccgggg cagcagtatg atgagggagt cggggctgta ctataaccgg aaccggtact
     4501 acgatccgtt gcagggacgc tatatcaccc aggatcccat tgggctgaag gggggatgga
     4561 acctgtatgc gtatccgctg aacccggtgc agcgggggga tcctcttggg ttgtctggtg
     4621 agacactggt tcttggttct gccacaacag taacaggaac aaaatttggg ggggcgttac
     4681 tttcgggtgg ggcggcgact tttgatgcag tcacgacggc tatggcgtct gctgcccctg
     4741 ctcttggagc aatggctgtg gtcgctgggc caatgggata tgaccttctc gctaatgatg
     4801 ggcgtgccgg gaaggctctg agcgatgggc agttaataaa ttctcaggct gaaatgtgtt
     4861 actggaccag tagttgtcct ttagatagcc cacatgagaa tgataattcg tcagggagtc
     4921 agccgaatgt tgggaaggat ttgacggatg aagagaagaa ctgcctggcc ggcggcagtg
     4981 caggaagtcc gggaggatgg ggtccagagg atgaggaaaa ggctcgcagt cgggggcgtg
     5041 gttctgatac agaagcaaaa ataaaggatc tggatcttct tcattcgccg gaaactattg
     5101 gctcgcgtcc tgatcttgct aaactaacag acagtgagtt gttagagtct gttattaatc
     5161 ctaagtctgg tgatcgagta actgttaata caaaaacaaa taaaagtaat ggatggtaat
     5221 tctcgtgtat acgagttgag agctgatgat cctaatagct caataaccgg tgaaactacg
     5281 ataccagtag aaactcacac ctgatgattc tttttgggac atgtaatatg aaaaatgaat
     5341 ttattctcat gaagttagtc gccagaggat tgctggatat aagaatagca gcagattctg
     5401 gtaatgtgaa agcttgtcat atgttatctg attttataca tactttaccg tatgctattg
     5461 agagggtttt aaaaggtgaa attgattatc agtacgtgat ggataattta aatgaaaggg
     5521 ccaagataaa aaacatggaa ggttggcttg ctaatgcgtt gagagatata aatgcgtcag
     5581 agtaatatcc tttgataaat aataagccgg gaagtatatt aattctcccg gtttttattg
     5641 ctaactgaaa aaccacgttc tgtgagtgca gcaggacaag attataaaaa aatctttaaa
     5701 aatattatga tatggtattt ttcttgatgt gaaatactat taactttaaa ataaggatat
     5761 acttgtatgg gtttataaaa atcacctgag tatatatcaa tcatcccgga cagggagaga
     5821 ttatcgtgca gggaaagatc cagggaaaga tccagggaaa gatcatcaga agttcacttt
     5881 ttgtactaaa taattcgcat tttatgttta aaaattgaga tattccttat tacctgaagc
     5941 tgttttttat tgcttataca tgatcaaata ctccttacat aattaaggag aacaaaatgg
     6001 aacttaaaaa attgatggaa catatttcta ttatccccga ttacagacaa gcctggaaag
     6061 tggaacataa attatccgat attctactgt tgactatttg tgccgttatt tctggtgcgg
     6121 aaggttggga agatatagag gattttgggg aaacacatct cgattttttg aagcaatatg
     6181 gtgattttga aaatggtatt cctgttcacg ataccattgc cagagttgta tcctgtatca
     6241 gtcctgcaaa atttcacgag tgctttatta actggatgcg tgactgccat tcttcagatg
     6301 ataaagacgt cattgcaatt gatggaaaaa cgctccagtc actttatgac aagagtcgcc
     6361 gcaggggagc gattcatgtc attagtgcgt ttctcaacaa tgcacagtct ggtcatcgga
     6421 cgagatcaag acggatgaga aaatctaatg agattacagc tatcccaaaa cttcttaaca
     6481 tattggatat taaaggaaaa atcatcacaa ctgatgcgat gggatgccag aaagatattg
     6541 cagagaagat acaaaaacag ggcggtgatt atttattcgc ggtaaaagga aaccaggggc
     6601 ggcttaataa agcctttgag gaaaaatttc cgctgaaaga attaaataat ccagagcatg
     6661 acagttacgc aatcagtgaa aagagtcacg gcagagaaga aatccgtctt catattgttt
     6721 tgctgatgcc ctgatgaact ctattgattt cacgtttgaa tggaaag
//
