LOCUS       NZ_CP149972             3240 bp    DNA     circular CON 06-APR-2024
DEFINITION  Escherichia coli strain SLDY13 plasmid pSLDY13-3, complete sequence.
ACCESSION   NZ_CP149972
VERSION     NZ_CP149972.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40590940
            Assembly: GCF_037953405.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3240)
  AUTHORS   Chen,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-MAR-2024) Department of Clinical Laboratory, Shandong
            Provincial Hospital Affiliated to Shandong First Medical University,
            jingshi Road, jinan, Shandong 250000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 60.0x
            Sequencing Technology             :: Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037953405.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 22:40:35
            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)                     :: 4,930
            CDSs (total)                      :: 4,810
            Genes (coding)                    :: 4,563
            CDSs (with protein)               :: 4,563
            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)              :: 247
            CDSs (without protein)            :: 247
            Pseudo Genes (ambiguous residues) :: 0 of 247
            Pseudo Genes (frameshifted)       :: 83 of 247
            Pseudo Genes (incomplete)         :: 157 of 247
            Pseudo Genes (internal stop)      :: 55 of 247
            Pseudo Genes (multiple problems)  :: 46 of 247
            Pseudo Genes (short protein)      :: 4 of 247
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149972.1.
            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..3240
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SLDY13"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSLDY13-3"
                     /geo_loc_name="China"
                     /lat_lon="36 N 117 E"
                     /collection_date="2019"
                     /collected_by="Department of Clinical Laboratory"
     gene            219..377
                     /locus_tag="WKR17_RS24645"
                     /old_locus_tag="WKR17_24645"
     CDS             219..377
                     /locus_tag="WKR17_RS24645"
                     /old_locus_tag="WKR17_24645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001403044.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKTPLAAAIGIWFTERRGV
                     YKHTQSS"
                     /name="hypothetical protein"
     gene            complement(566..2098)
                     /locus_tag="WKR17_RS24650"
                     /old_locus_tag="WKR17_24650"
     CDS             complement(566..2098)
                     /locus_tag="WKR17_RS24650"
                     /old_locus_tag="WKR17_24650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017899153.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NERD domain-containing protein"
                     /protein_id="WP_020244555.1"
                     /translation="MKKSVVRQVLEMSGPCISSDLAERIQWQYPSMSPEAIRKMISRST
                     DIGKLPFLKFSHNRRFIYLKDDFGSFKFWRALEKCMYEANSTYSHAILAVINNGGYLKV
                     KDFGIVSGSPIKQAKHLSYETVLRNLLSAKILRAVYIDGVGDCVLINNNIANDVNIRTM
                     ANCESFFDKPIFELVKAWLRNLGLVAFNQIKTKYDGEGNPVVGSFEWDMTAPSYVSPLA
                     EYVGGKLMPGFVACDFSLGFNRDEITTAAAETFIRKVQMTKSSRASQRIMFVIFARRFG
                     KIAFNKLRSEGVLAVTIANAFGNKVDESLTRLSRVVQGSLSIEKHPDELLQMVKDLESV
                     SGENGNLRGYVFELFVSSQISNFYGLGNIYINREYKINGKHAEADVVLESSDDIYIIEC
                     KNVKVLPSTELTRWMKERVPIINSYYKINNLEKKNIHHYLWVTGNVYNKDLKRLDSFKN
                     NNKNIDVDYLFGEHLDDFFYKKKRVFNLYRKVISPDYKKGVMPDFELEDDFF"
                     /name="NERD domain-containing protein"
     Typing          38..518
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.137"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 ccctgacaag catcacagaa tctgacgctc aaatcagtgg tggcgaaccc cgacaggact
       61 ataaagatcc caggcgtttc cccctggtag ctccctcgtg cgctctcctg ttcctgcctt
      121 tcggtttacc ggtgtcactc cgctgttatg gccgcgttta tctcattcca cgcctgacac
      181 tcagttccgg gaaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt
      241 ccgactgctg cgcctgttcc ggtaactatc gacttgagtc caacccggaa agacacgaca
      301 aaacgccact ggcagcagcc attggtatct ggtttacgga gcggagaggc gtgtacaagc
      361 atacacagag ttcttgaagt gttgacctga ctacggctac actggaagga cagatttggt
      421 cactgcgctc cgtttaagcc agttaccacg gttcagaaac ttgccggttt cctgaacctt
      481 cgaaaaacca ccttgccggg tggttttttc gtttcagaga tggaagatac gcctttcaaa
      541 gcgccatcgt caagaaacgc agtagctaga aaaaatcgtc ctctaactca aaatcaggca
      601 ttacgccttt tttataatca ggtgaaatga cttttctata taagttgaac acccgctttt
      661 tcttgtaaaa gaaatcatcc aaatgctcac caaacaaata atcaacatcg atattcttat
      721 tattattctt aaaagagtct aaccttttta aatctttgtt gtacacattc cctgtaaccc
      781 acaaataatg gtggatattc tttttttcta aattatttat tttatagtaa gagtttataa
      841 ttggaaccct ttctttcatc caacgcgtaa gttcagttga aggtaagacc ttaacatttt
      901 tgcactctat tatataaata tcgtcactac tctccaatac aacatcagct tctgcatgct
      961 taccatttat cttatactct ctattaatgt aaatattacc aaggccataa aaattagaaa
     1021 tttgcgagga tacaaaaagc tcaaaaacat accctctcaa attgccattc tctccagaaa
     1081 cagactccag atctttaacc atctgaagca actcatctgg atgcttttca atggacaaag
     1141 aaccctgaac caccctcgac aacctggtta agctttcatc aactttatta ccaaacgcat
     1201 ttgctatagt tacagccaga accccctcac ttctcaactt attgaaggct attttgccga
     1261 aacgccttgc gaaaataaca aacattatcc tctgactcgc tcgagaagac ttggtcatct
     1321 ggacttttct tatgaatgtt tctgctgcag cggtagtaat ttcatcacga ttaaagccga
     1381 gagaaaaatc acaggcaacg aaaccaggca tcagttttcc gccgacatat tcagcgagag
     1441 gggaaacgta acttggagcg gtcatatccc attcaaaaga gcctacaact ggatttccct
     1501 ccccatcata ttttgttttt atctgattaa aagcgactag gcctaaattc ctcaaccaag
     1561 ctttaacaag ctcaaatatt ggtttgtcaa aaaaggattc gcaatttgcc attgttctaa
     1621 tattaacatc gttggctatg ttgttattta tcagtacgca atcaccaact ccatcaatat
     1681 acacggctct aagtattttt gccgaaagta gatttcttag aactgtttca taacttaaat
     1741 gtttagcttg ttttatagga gatccagaca caatcccaaa atctttcacc ttcaaataac
     1801 cgccattatt tattacggca agtatcgcgt gtgagtaagt tgagtttgct tcgtacatgc
     1861 acttttcgag agctcgccaa aatttgaaac tgccaaaatc atcttttaga taaatgaatc
     1921 tcctgttatg gctgaatttc aaaaatggca gcttacctat gtccgtgctt cgcgagatca
     1981 ttttacgtat cgcttcaggg gacattgagg gatattgcca ctgaattctc tctgcaagat
     2041 ccgaagagat gcatggcccg ctcatttcaa gcacctgtct aacaacactt tttttcatat
     2101 cctcacctta tttctgtcac actacgctat ttataatatt acactacgtg taatagggcg
     2161 cagtctttta aaaaaaagtg actataaaaa ataattaaaa atcagatggt taattactta
     2221 ctttaaattg agcacaaaga aatatcgtct ttataattat ttaatccttt taaatcataa
     2281 agatagtatt gtgacatttt tttatcgaac tatcagctac tccatttacc ataacatccg
     2341 ttgcccgcac catctcagac gccctcagag catttctgcg ccctcctgcc tatttccggc
     2401 atctttccct gtccatatcg tgaaaaaacg cgcctgatga tttcttcgcg tctgcatggc
     2461 tatgcatacg aacgcatgga cgtcatttta gcggctaaaa tccggcgagc gccctgaaag
     2521 ccaccacgaa ccccaccgat aacggtgaaa gggtgcgcag tttactgtgc gaccgtgagg
     2581 cgttggccag gccgtcaggc atggcaggat ttattgctaa gggggtcgga tttaacctgg
     2641 attaatcagc acacagtgat gaacgggatt cggaaggggc acccttgcgg cgcggcgatg
     2701 tatacatcgc taacgtgcct tgtttatgga gcgcaaaaag agagtggtag cagtccgata
     2761 gcaaaaaagt agcaaaaaga tagcaaaagg agagcaaccg aaaggctcaa aggcccctga
     2821 aatagcaaaa agatagcaaa aaaatagcaa aaaagtagca aacatacggt gtcgggcgga
     2881 acctgaccag gagtcattgg cgtgccggcg gtactccaaa aatacatctt gtcccgctgt
     2941 cgtgtagcca caaaacattt cctgtccgct gctttaacct ttgtaatcca ggaacgtcag
     3001 gtgacgtcac tttgcggcgt tcgccctatc ctgcatcgta ttaaaaaatg cagctatggc
     3061 gcgtacggtg ccaaagagaa gcccgcagat attccgcttc ctcgctcact gactcgctcc
     3121 gctcggtcgt tcggctgcgg cgagcggagg gaacagagac attaagccat aggcaatgag
     3181 agagaatgga gaagcaacaa gaaaggccgc ggcgttgccg gttttccata ggctccgccc
//
