LOCUS       NZ_AP022658             2029 bp    DNA     circular CON 13-JUN-2023
DEFINITION  Escherichia coli strain 09-02E plasmid p8-09-02E, complete sequence.
ACCESSION   NZ_AP022658
VERSION     NZ_AP022658.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00198301
            Assembly: GCF_012149945.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Mohsin,M., Tanaka,K., Kawahara,R., Kondo,S., Noguchi,H., Motooka,D.,
            Nakamura,S., Khong,D.T., Nguyen,T.N., Tran,H.T. and Yamamoto,Y.
  TITLE     Whole-genome sequencing and comparative analysis of the genomes of
            Bacteroides thetaiotaomicron and Escherichia coli isolated from a
            healthy resident in Vietnam
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2029)
  AUTHORS   Mohsin,M., Tanaka,K. and Yamamoto,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-FEB-2020) Contact:Mashkoor Mohsin Institute of
            Microbiology; UAF main road 38000, Faisalabad, Punjab 38000,
            Pakistan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Platanus v. 1.2.4; Canu v. 1.7
            Genome Coverage                   :: 143X
            Sequencing Technology             :: illumina Miseq, Minion
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/13/2023 02:15:49
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,204
            CDSs (total)                      :: 5,083
            Genes (coding)                    :: 4,862
            CDSs (with protein)               :: 4,862
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 221
            CDSs (without protein)            :: 221
            Pseudo Genes (ambiguous residues) :: 0 of 221
            Pseudo Genes (frameshifted)       :: 81 of 221
            Pseudo Genes (incomplete)         :: 153 of 221
            Pseudo Genes (internal stop)      :: 36 of 221
            Pseudo Genes (multiple problems)  :: 46 of 221
            Pseudo Genes (short protein)      :: 4 of 221
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022658.1.
            Annotated at DFAST https://dfast.nig.ac.jp/
            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..2029
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="09-02E"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p8-09-02E"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /lat_lon="20.445128 N 106.337870 E"
                     /collection_date="2018-10-10"
     gene            1..441
                     /locus_tag="HRS14_RS25685"
                     /old_locus_tag="Esc0902E_49880"
     CDS             1..441
                     /locus_tag="HRS14_RS25685"
                     /old_locus_tag="Esc0902E_49880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000031238.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MarR family transcriptional regulator"
                     /protein_id="WP_024192735.1"
                     /translation="MSKDTQRITQINDQGEIVGGFVAVIRPKQKSSFQRHFTMNQDALK
                     ILAKELTGEQFKVLMLMLADLDYENFIQIAQADIADALEMQKTHVSRAVRALLDVGVIF
                     EGPKVGRSKTYRLNEQFGWKGTVSNHKKALKNGLSVIQGGRT"
                     /name="MarR family transcriptional regulator"
     gene            complement(505..1473)
                     /gene="mobV"
                     /locus_tag="HRS14_RS25690"
                     /old_locus_tag="Esc0902E_49890"
     CDS             complement(505..1473)
                     /gene="mobV"
                     /locus_tag="HRS14_RS25690"
                     /old_locus_tag="Esc0902E_49890"
                     /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(509..1482)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.077"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcaagg acacccagag aatcacccag attaacgatc aaggtgagat tgttggcggc
       61 ttcgtcgcgg taatcagacc caagcaaaaa tcgtcatttc agaggcattt cactatgaac
      121 caagacgcat taaagatcct cgctaaggag ctaacgggcg agcaatttaa agttctaatg
      181 ctcatgctcg ctgatctgga ttacgagaat ttcatccaaa ttgcacaggc tgatatagcg
      241 gatgcattgg agatgcaaaa gacccacgta agccgcgctg ttcgtgctct tcttgatgta
      301 ggcgtgatct ttgaaggtcc gaaagtaggt agatccaaaa cctatcggtt gaacgagcaa
      361 ttcggctgga aaggaacagt aagcaatcac aaaaaagccc ttaaaaacgg cctcagcgtt
      421 atacagggcg gcagaacctg atctctggaa tgccgcaaat gacgtcactt tgcggcgtta
      481 gccctatcct gcatcgcatc aaaactaacg ctccatacca cccatgccac gcgatcgcgt
      541 ctgtcgctgt ttttcacgtt caatacgctg ctgtttttcc ttttcctggt tttgctgctt
      601 aaaccgctga gccatcatca ggatttcggt catctgctct ctggaaagcc ccttaaaagg
      661 ctctgtaacg ctctgtaggc gtttctgctg cgcatccata gtcttctgta gctcacgcgc
      721 tctttttgcg ttctgggcgc tctgagaggc catagcgatg gttcctgcaa agccatcgtt
      781 cactgcgtgg cttagacgtt tggctatggc tgcctgatct tccacgtctt tggtgaaaat
      841 gcccttccgc aatacacgcg gctccagcgc ctccggcgag atcgatacct ggctacgggt
      901 gccacggttt atcgattcgt agtagtgctg aactgtctga tgcgtggcgc ggcttccctc
      961 gatgccgcgc tcaagaccca gtttttttac tgattcagcg taggtgctct gatcttcacg
     1021 catctttgac cgcccgccaa taaactcttt cgcggacagc cgtccatcct gcgtcaatgg
     1081 caccacgaac gcagacaggt gcggggtggc ctcgtcccgg tgaaccaccg ccgccacaac
     1141 acgatccttc ccgtatttct tctccagcca ttgctcagag cgggcgaaaa actccgcctg
     1201 ctgccgtggt gtggcctctt tccaccactc agggcttgct gtcataacgt attcaacggc
     1261 cagtaccgca tctttacggc gtttttccgg cagcagctcc cgcacacgcc ccattgcctg
     1321 atccgttgat ttggacacag agcagtagtt ttctggtgtc cgttcagcgt tagcgttcgg
     1381 cgtctcacgc tctcggtagc agtgctgcaa cgcgctggcc acgcttccca ttcccgtcag
     1441 ctttttgcag cgcattatcg cgtagttcgc catgttcccc cctgattccg gcattcattc
     1501 agccaggcgg gggagcgcat tgcgatacct ccggcgggcc actatcaaga tgatagtgta
     1561 ctcactagac tttgctacgc aaaatcgttc gggcagcaag ctgccagaag gtcaaaatca
     1621 acggcggtct ggcaggtgga aggcgtcgct tcgcgccacc ccccaccact gccaagcctg
     1681 ttttatccgg agtgtcgtca agggtaaatg gcactcgctt cgctcgccct tgacgaaatc
     1741 aggcaatgaa tatcgctttt gaaagagcag gaaccgctcg ccgcagactc atgaccgaac
     1801 gtagtgagcg aatgagcgag gaagcggaat ttccactccc cgtacataga aatccgtaca
     1861 ctccgtagct aaaaaacgtt ggtattcaga gctaaaccgc gcgcacgcgt tataagatac
     1921 agaaggagcg ataaaaaaac gtatgtatgg cgaggggtta catttgacat agttaccaat
     1981 aatggtaaca ctgttaccaa taatggtaac tcaagatagg ttattttcg
//
