LOCUS       NZ_CP092980             2444 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain WCHEC005215 plasmid p4_005215, complete
            sequence.
ACCESSION   NZ_CP092980
VERSION     NZ_CP092980.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06209720
            Assembly: GCF_022559685.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2444)
  AUTHORS   Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain 005215
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2444)
  AUTHORS   Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-MAR-2022) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Trycycler v. 0.5.3; Flye v. 2.9; Raven v. 1.8.0;
            Miniasm v. 0.3
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 150.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022559685.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:43:40
            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)                     :: 5,008
            CDSs (total)                      :: 4,888
            Genes (coding)                    :: 4,629
            CDSs (with protein)               :: 4,629
            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)              :: 259
            CDSs (without protein)            :: 259
            Pseudo Genes (ambiguous residues) :: 0 of 259
            Pseudo Genes (frameshifted)       :: 85 of 259
            Pseudo Genes (incomplete)         :: 175 of 259
            Pseudo Genes (internal stop)      :: 57 of 259
            Pseudo Genes (multiple problems)  :: 52 of 259
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092980.1.
            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..2444
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WCHEC005215"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p4_005215"
                     /geo_loc_name="China: Sichuan, Chengdu"
                     /collection_date="2013-09"
     gene            645..1127
                     /locus_tag="MM176_RS24875"
                     /old_locus_tag="MM176_24910"
     CDS             645..1127
                     /locus_tag="MM176_RS24875"
                     /old_locus_tag="MM176_24910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001565850.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_223375251.1"
                     /translation="MNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPYVKLYIAD
                     IAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKNIIAALVD
                     KQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVMDDEC"
                     /name="hypothetical protein"
     gene            1114..1344
                     /locus_tag="MM176_RS24880"
                     /old_locus_tag="MM176_24915"
     CDS             1114..1344
                     /locus_tag="MM176_RS24880"
                     /old_locus_tag="MM176_24915"
                     /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_124788667.1"
                     /translation="MMNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRT
                     SGNKYSTKGLSPKQKNAAFSILKKHNYHLND"
                     /name="hypothetical protein"
     gene            complement(1414..2382)
                     /gene="mobV"
                     /locus_tag="MM176_RS24885"
                     /old_locus_tag="MM176_24920"
     CDS             complement(1414..2382)
                     /gene="mobV"
                     /locus_tag="MM176_RS24885"
                     /old_locus_tag="MM176_24920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_000024818.1"
                     /translation="MANYAIMRCKKLTGMGSVASALQHCYRERETPNANAERTPENYCS
                     VSKSTDQAMGRVRELLPEKRRKDAVLAVEYVMTASPEWWKEATPRQQAEFFARSEQWLE
                     KKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMREDQSTYAESVK
                     KLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPRVLRKGIFTKDVEDQAA
                     IAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKRLQSVTEPFKGLSREQM
                     TEILMMAQRFKQQNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="mobV"
     Typing          complement(1418..2391)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.077"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 gggccactat caagatgata gtgtaaactc actagacttt gctacgcaaa atcgttcggg
       61 cagcaagctg ccagaaggtc aaaatcaacg gcggtctggc aggtggaagg cgtcgcttcg
      121 cgccaccccc caccactgcc aagcctgttt tatccggagt gtcgtcaagg gtaaatggca
      181 ctcgctacgc tcgcccttga cgaaatcagg caatgaaatc gtctttgaaa gagcaggaac
      241 cgctcgccgc agctttggct gaggcgtacc gcaggagcaa cgcgacgagg aacgaacagc
      301 caaagcgagg aagcggaatt tccactcccc gtacatagaa atgcgtacac tccttgctaa
      361 aaaaaggcag tttttcagtg tctaaaaatg ccgtttttca gcccttattt tcccccttaa
      421 tatatagata tagatatggg aacccgcttg taccaagggc tagagcgaag aatcgtactc
      481 acctcaagta ccaatcgtac tcacctcaag tactaatcgt actcacctca aggactaatc
      541 gtactcacct caagtactaa tcgtacttga tacaaaggac ttgactgtat gtctctttag
      601 tacttaaatg cgagtactaa atcatggcga aacgtggggc tggagtgaat acgaaaaaga
      661 tttctaggct tgaacggcat acatacatgg atgaaaacgg tgaggtaaaa caagactcta
      721 agatcgagac cttttccatc ccagccgaac ctccctacgt caagctatac attgcagaca
      781 ttgcgatgat tcatggttta tcaaaatctc aaaatgatgt gcttttacaa ttggcaatgc
      841 tgattggatg ggatgggttt gtgtctgtat caaaaactag atttgaaaaa accatacagc
      901 ccagggttca tattgaatat cagaccttta aaaacataat tgcggctctt gtagataaac
      961 aaatattctt ccgggcaggg cgtggggaac ttgaagctaa cccctttctt tttgcacggg
     1021 gagactggcc atcaatttac gaaagaagaa agaaaattga gttaaagatc agttatgaca
     1081 ccaatggaag aacggtgcag acgaaggtaa tggatgatga atgctgaaga taaacttttt
     1141 aaaaatgtag acaggctaat gctgcatgat tcactaaaaa agaatgaggt tctgactgtt
     1201 tgggagcgta cttttttaag cagtgtttac agcatatatc gtagaactag cggtaataaa
     1261 tactcaacta agggtttgtc accaaagcag aaaaacgcag ctttttctat tttaaaaaaa
     1321 cataattacc atctgaatga ttaatttttt cgtggtgaat gccgcaaatg acgtcacttt
     1381 gcggcgttag ccctatcctg catcgcatca aaactaacgc tccataccac ccatgccacg
     1441 cgatcgcgtc tgtcgctgtt tttcacgttc aatacgctgc tgtttttcct tttcctggtt
     1501 ttgctgctta aaccgctgag ccatcatcag gatttcggtc atctgctctc tggaaagccc
     1561 cttaaaaggc tctgtgacgc tctgtaggcg tttctgctgc gcatccatag tcttctgtag
     1621 ctcacgcgct ctttttgcgt tctgggcgct ctgagaggcc atagcgatgg ttcctgcaaa
     1681 gccatcgttc actgcgtggc ttagacgttt ggctatggct gcctgatctt ccacgtcttt
     1741 ggtgaaaatg cccttccgca atacacgcgg ctccagcgcc tccggcgaga tcgatacctg
     1801 gctacgggtg ccacggttta tcgattcgta gtagtgctga actgtctgat gcgtggcgcg
     1861 gcttccctcg atgccgcgct caagacccag tttttttact gattcagcgt aggtgctctg
     1921 atcttcacgc atctttgacc gcccgccaat aaactctttc gcggacagcc gtccatcctg
     1981 cgtcaatggc accacgaacg cagacaggtg cggggtggcc tcgtcccggt gaaccaccgc
     2041 cgccacaaca cgatccttcc cgtatttctt ctccagccat tgctcagagc gggcgaaaaa
     2101 ctccgcctgc tgccgtggtg tggcctcttt ccaccactca gggcttgctg tcataacgta
     2161 ttcaacggcc agtaccgcat ctttacggcg tttttccggc agcagctccc gcacacgccc
     2221 cattgcctga tccgttgatt tggacacaga gcagtagttt tctggtgtcc gttcagcgtt
     2281 agcgttcggc gtctcacgct ctcggtagca gtgctgcaac gcgctggcca cgcttcccat
     2341 tcccgtcagc tttttgcagc gcattatcgc gtagttcgcc atgttccccc ctgattccgg
     2401 cattcattca gccaggcggg ggagcgcatt gcgatacctc cggc
//
