LOCUS       NZ_CP060992             4761 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain EC31 plasmid pEC31-6, complete sequence.
ACCESSION   NZ_CP060992
VERSION     NZ_CP060992.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15904669
            Assembly: GCF_022558625.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4761)
  AUTHORS   Ruan,Z.
  TITLE     Complete genome sequence of carbapenem resistant Escherichia coli
            isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4761)
  AUTHORS   Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2020) Department of Clinical laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022558625.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:05:25
            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)                     :: 5,238
            CDSs (total)                      :: 5,118
            Genes (coding)                    :: 4,841
            CDSs (with protein)               :: 4,841
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 277
            CDSs (without protein)            :: 277
            Pseudo Genes (ambiguous residues) :: 0 of 277
            Pseudo Genes (frameshifted)       :: 90 of 277
            Pseudo Genes (incomplete)         :: 190 of 277
            Pseudo Genes (internal stop)      :: 59 of 277
            Pseudo Genes (multiple problems)  :: 56 of 277
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060992.1.
            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..4761
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC31"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC31-6"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2017-12-06"
                     /collected_by="Long Sun"
     gene            complement(968..1264)
                     /locus_tag="H9212_RS25975"
                     /old_locus_tag="H9212_25715"
     CDS             complement(968..1264)
                     /locus_tag="H9212_RS25975"
                     /old_locus_tag="H9212_25715"
                     /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_134723141.1"
                     /translation="MERKHKGKCPFCNSEMAPEVIEKNTIRRDKCKCTTCGEIIYKCRN
                     IFCNDYAKGGLLYDDELCPPCGERLLKAVKEFPDKYRAAIQKVVEEKNREKNN"
                     /name="hypothetical protein"
     gene            complement(1339..1494)
                     /locus_tag="H9212_RS25980"
                     /old_locus_tag="H9212_25720"
     CDS             complement(1339..1494)
                     /locus_tag="H9212_RS25980"
                     /old_locus_tag="H9212_25720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010940654.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF1508 domain-containing protein"
                     /protein_id="WP_072210546.1"
                     /translation="MNDKWEFYLDNSKEWRWRRTASNGRIVGASSQGYVNKSDCIDNAR
                     RHGYNG"
                     /name="DUF1508 domain-containing protein"
     gene            1907..2887
                     /locus_tag="H9212_RS25985"
                     /old_locus_tag="H9212_25725"
     CDS             1907..2887
                     /locus_tag="H9212_RS25985"
                     /old_locus_tag="H9212_25725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416498.2"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS5-like element IS5 family transposase"
                     /protein_id="WP_000019402.1"
                     /translation="MSHQLTFADSEFSSKRRQTRKEIFLSRMEQILPWQNMVEVIEPFY
                     PKAGNGRRPYPLETMLRIHCMQHWYNLSDGAMEDALYEIASMRLFARLSLDSALPDRTT
                     IMNFRHLLEQHQLARQLFKTINRWLAEAGVMMTQGTLVDATIIEAPSSTKNKEQQRDPE
                     MHQTKKGNQWHFGMKAHIGVDAKSGLTHSLVTTAANEHDLNQLGNLLHGEEQFVSADAG
                     YQGAPQREELAEVDVDWLIAERPGKVRTLKQHPRKNKTAINIEYMKASIRAKVEHPFRI
                     IKRQFGFVKARYKGLLKNDNQLAMLFTLANLFRADQMIRQWERSH"
                     /name="IS5-like element IS5 family transposase"
     gene            complement(3660..3818)
                     /locus_tag="H9212_RS26300"
     CDS             complement(3660..3818)
                     /locus_tag="H9212_RS26300"
                     /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="replication initiation protein"
                     /protein_id="WP_071529495.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDKAPLAAATGNWTRWIEIL
                     RVLEVVA"
                     /name="replication initiation protein"
     gene            complement(4473..4667)
                     /locus_tag="H9212_RS25990"
                     /old_locus_tag="H9212_25730"
     CDS             complement(4473..4667)
                     /locus_tag="H9212_RS25990"
                     /old_locus_tag="H9212_25730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_001041633.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          171..426
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.124"
                     /coverage="89.0"
                     /evalue="5.65e-115"
     Typing          4316..4400
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.674"
                     /coverage="100.0"
                     /evalue="6.569999999999999e-34"
     Typing          complement(3747..4296)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.937"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cctgtcctgt ttttttagga cgtatcatgg cacagcatat caactgataa ataatccctg
       61 tgcagtgcag tgcagccgct gttgcataaa atttcgctct gcgtcgagtg tttcttaatc
      121 aataattccg ctgatattcc ggaaaaacgc gagtctgttc tcatgcctga aatgcccaca
      181 ccccacgcaa aaacaatttt ttgctgattt ttctttataa atagagagtt atgacaaatt
      241 agttcttctt gctctctttg tgatatttaa aaaagcggtg tcggcgcggt gttgtagctg
      301 cgccaacacc gctttttagg ggtggtactg actattttta taaaaaacat cattttatat
      361 taggggtgct gctagcggcg cggtgtgttt ttttacagga cgcccctggg ggcgctgcta
      421 ggggtgtctg ttcagatatg tagcaatgag tcagggattc acgaactgaa aatgtccgaa
      481 aatgtgtctc atgggcaccg tatgcgccca aaccgatcgc cattcacttt catgcatagc
      541 tatgcagtga gctgaaagcg atcctgacgc atttttccgg ttttcgcttg gtaaaacatc
      601 tctttttgcg gtgttcgcgg cagaatcgcg ttcagcgcgt tttggcggtg cgtataatta
      661 cagggttatg ttaaattgat ggtttgataa gtgttggaaa taattaattc cactcataaa
      721 tatacaagat atgaaaaaaa tattgttcat atggtagaag agctataggg atatttggtt
      781 tcaaaatatt ccttttagga aatggattaa ctaaaacagg tactaaaata cctgttaaaa
      841 ataatgagag agataactct ctgttagggc gtgtgttggg gatatagaaa tatttggtat
      901 tgcttacgaa atcgattggt tttcatgata attaactaat atagttatat ggttttgtgc
      961 gctaccatta attattcttt tctctattct tctcttctac aactttttga attgctgctc
     1021 gatacttatc agggaactct tttaccgcct ttaaaagacg ttcaccacat ggagggcaca
     1081 gttcgtcatc gtaaagtaat ccgccttttg cgtagtcatt acagaatata tttcggcatt
     1141 tataaataat ctctccacaa gttgtacatt tacatttatc tctgcggata gtgttttttt
     1201 ctataacttc tggagccatt tcgctattgc aaaaagggca cttacctttg tgttttcttt
     1261 ccatggtatt tttctatttg tttatctctt tgcaattggg attcctgctt ggaatcccaa
     1321 catgagaatc aatttatatt agccgttgta gccatgacga cgtgcgttat caatacaatc
     1381 agatttattg acatatcctt gagatgatgc tccaacaatt cgcccgttgc ttgcagttct
     1441 gcgccagcgc cactcttttg aattatcgag ataaaactcc cacttatcgt tcattcaggt
     1501 ttccttcttc cagttagata tttagtgatg atttgtacca gcaggtaggt atcatttcat
     1561 ttttttttct aataagcgtg ttacaactgt actgacgacg atacttaagg ctgttgtccc
     1621 taatgcgccg atacttctac ctatgttcga catgcatgac gggcataatt catcatcata
     1681 taaatgaccg cccttagcgt aattctcaca ccctggagta cgacatacgt aaattattga
     1741 tttacaatca gaacactcac acttatctcg ccgtatcttg ttttcttgaa ttacacgggc
     1801 attgatttcc tttttacaaa aaggacacac tcctttaggg aaggtgcgaa caagtccctg
     1861 atatgagatc atgtttgtca tctggagcca tggaacaggg ttcatcatga gtcatcaact
     1921 taccttcgcc gacagtgaat tcagcagtaa gcgccgtcag accagaaaag agattttctt
     1981 gtcccgcatg gagcagattc tgccatggca aaacatggtg gaagtcatcg agccgtttta
     2041 ccccaaggct ggtaatggcc ggcgacctta tccgctggaa accatgctac gcattcactg
     2101 catgcagcat tggtacaacc tgagcgatgg cgcgatggaa gatgctctgt acgaaatcgc
     2161 ctccatgcgt ctgtttgccc ggttatccct ggatagcgcc ttgcctgacc gcaccaccat
     2221 catgaatttc cgccacctgc tggagcagca tcaactggcc cgccaattgt tcaagaccat
     2281 caatcgctgg ctggccgaag caggcgtcat gatgactcaa ggcaccttgg tcgatgccac
     2341 catcattgag gcacccagct cgaccaagaa caaagagcag caacgcgatc cggagatgca
     2401 tcagaccaag aaaggcaatc aatggcactt tggcatgaag gcccacattg gtgtcgatgc
     2461 caagagtggc ctgacccaca gcctagtcac caccgcggcc aacgagcatg acctcaatca
     2521 gctgggtaat ctgctgcatg gagaggagca atttgtctca gccgatgccg gctaccaagg
     2581 ggcgccacag cgcgaggagc tggccgaggt ggatgtggac tggctgatcg ccgagcgccc
     2641 cggcaaggta agaaccttga aacagcatcc acgcaagaac aaaacggcca tcaacatcga
     2701 atacatgaaa gccagcatcc gggccaaggt ggagcaccca tttcgcatca tcaagcgaca
     2761 gttcggcttc gtgaaagcca gatacaaggg gttgctgaaa aacgataacc aactggcgat
     2821 gttattcacg ctggccaacc tgtttcgggc ggaccaaatg atacgtcagt gggagagatc
     2881 tcactaaaaa ctggggataa cgccttaaat ggcgaagaaa cggtctaaat aggctgattc
     2941 aaggcattta cgggagaaaa aatcggctca aacatgaaga aatgaaatga ctgagtcagc
     3001 cgagaagaat ttccccgctt attcgcacct tccttaggtt ttaagtccat tagggcttac
     3061 ctaatagcac tacaacttat taattttgaa cgacatttag ggcaataatc aggtgtccca
     3121 aatccagctc tactggtcca ttcgtggcgg cagtttaagc atttagcccg atagatgacg
     3181 atacctgcca taaaaatccc ctttttatca tacattaatg ttgatttatt atattctgaa
     3241 cataataaat gtaaagtata ctatgtgata aacgtaatgc attgatttta ttgatattaa
     3301 aaatatttat tagagtgcta ataatggtgt tttttttgat ttttttatta aaaacaatat
     3361 gttgtatatg tgttggtgtc gtttgattac gttcaataaa tgcgtgtatc aatattagat
     3421 atacaaaaat gaagttagaa ggtggctggg agttttagga gatttgccct ccttcagtaa
     3481 aaagatcaaa ggatcctctt gagatccttt ttttctgcgc gtaatctgct gcctgtaaac
     3541 gaaaaaaccg cctggggagg cggtttagtc gaaggttaag tcagttgggg actgcttaac
     3601 cgggtaactg gcttggtgga gcacagatac caaatactgt ccttctagtg tagccgcagt
     3661 taggccacca cttcaagaac tcttaatatc tcaatccacc ttgtccagtt accagtggct
     3721 gctgccagtg gcgctttgtc gtgtcttacc gggttggact caagacgata gttaccggat
     3781 aaggcgcagc ggtcgggctg aacggggggt tcgtgcacac agcccagctt ggagcgaacg
     3841 acctacaccg agccgagata cctacagcgt gagctatgag aaagcgccac gcttcccgaa
     3901 gggagaaagg cggacaggta tccggtaaac ggcagggtcg gaacaggaga gcgcacgagg
     3961 gagccaccag ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg ccatctctga
     4021 cttgagcgtc ggtttttgtg atgctcgtca ggggggcgga gcctatggaa aaacgccatc
     4081 ggcgcggcct tttgttgctc tttgcctttt tgctcacatg ttctttccgg ccttatcccc
     4141 tgattctgtg gataaccgta ttaccgcctt tgagtgagcc gacaccgctc gccgcagtcg
     4201 aacgaccgag cgtagcgagt cagtgagcga ggaagcggaa gagcgtcgga agttgcattt
     4261 tctccttacg catctgtgcg gcatttcaca ccgcatatgg cgctcttttc ttacaatccg
     4321 cactgatgcc gcatagataa gccagtatac actccgctat cgctacgtga ctgggtcagg
     4381 gcttcgcccc gacacccgct gacgcgccct ggcgggcttg tctgctgccg aaaacgctcg
     4441 cggacaagcc gtgagcgcct ccgtcagctt cgttatgttc ctgtttcact ttcggtctca
     4501 aagcgaacct ggatgctgtt ctggagttct tccgcgagtt cgtgcagtcg ttcgcacatg
     4561 gccgcctgtt cgtcggcatc cagagcatcc agtttttcaa gcagtgtcag gctctggctt
     4621 ttgataaatc gcgccatatt cagcgcagtt tgttgctgtt tgttcacctt ccgttgttct
     4681 ccgtcagtac cgggtgtcgg gtggaccctg accaggtggt aattgtaaga cgttgcgggc
     4741 gacggtatta caattgcaca t
//
