LOCUS       NZ_CP060072             1934 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain G5 plasmid pSYM3, complete sequence.
ACCESSION   NZ_CP060072
VERSION     NZ_CP060072.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15693148
            Assembly: GCF_014295295.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1934)
  AUTHORS   Jenjaroenpun,P., Wongsurawat,T., Khan,N., Wassenaar,T.M.,
            Nookaew,I., Ussery,D.W. and Zimmerman,K.
  TITLE     Whole genome sequencing of five probiotic Escherichia coli strains
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1934)
  AUTHORS   Jenjaroenpun,P., Wongsurawat,T., Khan,N., Wassenaar,T.M.,
            Nookaew,I., Ussery,D.W. and Zimmerman,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-AUG-2020) Biomedical Informatics, University of
            Arkansas for Medical Sciences, 4301 W Markham St, Little Rock, AR
            72205, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2020
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: UAMS_Ecol_g5
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 696x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:46:22
            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)                     :: 4,964
            CDSs (total)                      :: 4,845
            Genes (coding)                    :: 4,610
            CDSs (with protein)               :: 4,610
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 235
            CDSs (without protein)            :: 235
            Pseudo Genes (ambiguous residues) :: 0 of 235
            Pseudo Genes (frameshifted)       :: 88 of 235
            Pseudo Genes (incomplete)         :: 147 of 235
            Pseudo Genes (internal stop)      :: 43 of 235
            Pseudo Genes (multiple problems)  :: 42 of 235
            Pseudo Genes (short protein)      :: 4 of 235
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060072.1.
            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..1934
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="G5"
                     /isolation_source="feces from healthy individual"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSYM3"
                     /geo_loc_name="Germany"
                     /collection_date="1954"
     gene            complement(join(1815..1934,1..597))
                     /locus_tag="H4P49_RS24525"
                     /old_locus_tag="H4P49_24520"
     CDS             complement(join(1815..1934,1..597))
                     /locus_tag="H4P49_RS24525"
                     /old_locus_tag="H4P49_24520"
                     /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="protein rep"
                     /protein_id="WP_064761962.1"
                     /translation="MWQARFYQSLPRIVADYPDARWMFLTLTVRNCAIGELGETLNRMN
                     MAFQRLKDRKEFRPVQGWIRTTEVTRGSDGSAHPHFHTLMMVPPSMFTRDYVKHDRWVE
                     LWRECLRVNYDPNVDVRAVKPRKPKDGESLASATAELVRGAVAETLKYSTKPADMVADP
                     EWFLELTKQTHKRRFVATGGALKDILKLDQETDADMVIGDDIPEGDDDGSRIAFEWKTE
                     SKKYRRSPSKDKAESD"
                     /name="protein rep"
     gene            complement(854..1156)
                     /locus_tag="H4P49_RS24530"
                     /old_locus_tag="H4P49_24525"
     CDS             complement(854..1156)
                     /locus_tag="H4P49_RS24530"
                     /old_locus_tag="H4P49_24525"
                     /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_100608383.1"
                     /translation="MAGSIRARSLYLYLRDNSGDKKWHQALRTKASWLICVVEGFGSIL
                     LGVVALKATPATTAIVRGCDHLQKFDSKRQPTGDTAMITRQMSHRPAWGGVHAKP"
                     /name="hypothetical protein"
     Typing          2..155
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.032"
                     /coverage="80.0"
                     /evalue="8.46e-47"
ORIGIN
        1 catatcggca tcagtttcct gatcgagttt cagtatgtct ttgagtgcgc caccggtagc
       61 cacaaatcgg cgcttatgtg tctgcttagt caattcgagg aaccattcag gatcagcaac
      121 catgtcagcc ggcttcgtgg aatatttcag ggtttcagcc actgcgcccc gtacaagttc
      181 cgcagttgca gaagccaatg attctccgtc cttaggcttg cggggtttta ctgctcgaac
      241 atcaacattc ggatcgtaat tcacacgcaa acactctcgc caaagctcta cccagcggtc
      301 atgtttaacg taatctcgcg tgaacattga gggaggaacc atcatcagag tgtgaaagtg
      361 cgggtgcgca ctaccgtcac ttccacgtgt aacttccgtg gtgcggatcc agccctgaac
      421 aggtcgaaac tctttgcgat ccttaagtcg ctggaaggcc atgttcattc ggttaagtgt
      481 ctcacccaat tccccgatcg cgcagtttcg cactgtgagg gtcaggaaca tccagcgtgc
      541 atctggataa tccgcaacaa tacgcggcag ggactgataa aaacgggctt gccacatcag
      601 ggatcgcctc cactggcaga caggacagtg ccggacacgg cagaaatgcg cctcacgtag
      661 cctaaggcga gtttctccag tttctttgag ggtagaccaa ccaaacctca gtaaaccgcc
      721 acaggaagcc atacgcgccc cgtagcgctc atattcggct gcgagaaggt aaatcccacc
      781 tacgtcgtca gaaacgcttt tgtgagcgtc ccagggcgcg tctgaggggg agtaatccgt
      841 gaggttctgg agtttagggt tttgcatgca caccgcccca tgctgggcga tggctcattt
      901 gacgtgttat cattgccgta tcacctgttg gttgtcgctt cgaatcgaat ttctgcaggt
      961 ggtcacaccc ccgaacgatg gccgtcgttg cgggggtcgc ttttaaggcg accactccca
     1021 acagaatact tccaaaacct tctacaacgc aaataagcca cgaagccttg gtacgcaagg
     1081 cttgatgcca ttttttatcg ccagagttat cccttaagta taaatacaag gatcgcgcgc
     1141 ggatcgaacc agccattcaa cgcccacctg ccaccaaaaa ctgccacaac gctaggagcg
     1201 aaacagcaac gctcaacgca ctatcaacat gattaagaac ctcaaaaaac ataacaacct
     1261 cactcgaatg gaattgggta aatctattta gtctgtgatt tgcgaaccca tactttttcg
     1321 catcacgaca gaaccaactc cattcgttct ggttgtatcc ggtaccagac aattaaaaac
     1381 cgtcttccag gtggttggcc tcacttcgtg aatccaacca cctcagccaa tttttcaatc
     1441 agcaatgtcg tcaatcacta aatcggaacc cactggcaag ccagcgggac cccacgattt
     1501 agagtttgac gatttcggaa acggcgagcg ctggcagatt ttaatctgac tgcgtgaggt
     1561 gttggcaggg tgtcggggcg cagccctgac gaatcgtttt tggcaccgac atcgtgatgg
     1621 cggtgtacca aaaacacatc ttgtcccaac tgagttcgga aaccgaactc agtaattgag
     1681 tgacgtcact ttgcggcgtt agccctatcc tgcatcggag tagaactaat aggacaagat
     1741 gtgtttttgg agtaccgccg acaagcggcg tcctctcaaa aacgtcgtgg tcagggctgc
     1801 gccccgatac cctgtcagtc tgattcagct ttatcttttg acggtgagcg acggtacttt
     1861 ttggattcgg ttttccactc aaaagcaatg cgtgaaccat catcatcgcc ttcgggaata
     1921 tcatccccga ttac
//
