LOCUS       NZ_CP060069             4461 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain G5 plasmid pSYM7, complete sequence.
ACCESSION   NZ_CP060069
VERSION     NZ_CP060069.1
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 4461)
  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  JOURNAL   Unpublished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 4461)
  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
            CP060069.1.
            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..4461
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="G5"
                     /isolation_source="feces from healthy individual"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSYM7"
                     /geo_loc_name="Germany"
                     /collection_date="1954"
     gene            174..389
                     /locus_tag="H4P49_RS24450"
     CDS             174..389
                     /locus_tag="H4P49_RS24450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_058671277.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            518..1036
                     /locus_tag="H4P49_RS24455"
                     /old_locus_tag="H4P49_24455"
     CDS             518..1036
                     /locus_tag="H4P49_RS24455"
                     /old_locus_tag="H4P49_24455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016246513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_053274237.1"
                     /translation="MKCFWACSVSVVLVMSFTVASAENITYTKPSAGRDLYLTCKGYQV
                     KGASIINVEKPSYLEGTGEQVEFAIISLGDASDGLKVFFDSWGFSSFGLIESHVMHEHW
                     SLVHVGGRVSVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCINSDKRPSWVEKIYTRT
                     GVFRGGIED"
                     /name="hypothetical protein"
     gene            complement(1219..1548)
                     /locus_tag="H4P49_RS24460"
                     /old_locus_tag="H4P49_24460"
     CDS             complement(1219..1548)
                     /locus_tag="H4P49_RS24460"
                     /old_locus_tag="H4P49_24460"
                     /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_052909321.1"
                     /translation="MKILPAEPGLYFFASFESGAHVYKVVAWSENENGGLDPQCVLTAL
                     YDKSSSSQQWELHSTSASAYQHSNDGRPFMYFITYFTSNGGIPELYNAINTLAERWGYP
                     LIDLP"
                     /name="hypothetical protein"
     gene            complement(1632..2063)
                     /locus_tag="H4P49_RS24465"
                     /old_locus_tag="H4P49_24465"
     CDS             complement(1632..2063)
                     /locus_tag="H4P49_RS24465"
                     /old_locus_tag="H4P49_24465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003511628.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6530 family protein"
                     /protein_id="WP_053274236.1"
                     /translation="MNIPTHLKHKPIIAVENYDRIDGPYADDTDAMGLSVGIAQWNTPG
                     YTELSAKVWRNTGEKWSRQSEELPLHRVIDLATLICIAMDYSKHGRLSSSDDFPVSRSG
                     GNPELSRHIDLMKNELKENHEYLDESLKRLAAELKRLGY"
                     /name="DUF6530 family protein"
     gene            complement(2393..2506)
                     /locus_tag="H4P49_RS24470"
                     /old_locus_tag="H4P49_24470"
     CDS             complement(2393..2506)
                     /locus_tag="H4P49_RS24470"
                     /old_locus_tag="H4P49_24470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032634168.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            3145..3468
                     /locus_tag="H4P49_RS24475"
                     /old_locus_tag="H4P49_24475"
     CDS             3145..3468
                     /locus_tag="H4P49_RS24475"
                     /old_locus_tag="H4P49_24475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001347450.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSL
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3458..>4297
                     /locus_tag="H4P49_RS24480"
                     /pseudo=""
     CDS             3458..>4297
                     /locus_tag="H4P49_RS24480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557251.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     Typing          2859..3041
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.737"
                     /coverage="86.0"
                     /evalue="2.11e-43"
     Typing          complement(2394..2895)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.179"
                     /coverage="96.0"
                     /evalue="1.29e-158"
     Typing          3..481
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="88.75"
                     /coverage="99.0"
                     /evalue="5.97e-80"
     Typing          3459..4459
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.21"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 attacacgac catccgggag cagaagcgca cgcaggccat gctgtccgag aggaacagcg
       61 gcgtgcagct ctcgacctgc ggagagcaga gacgccgctg cgtgagggtg aacccggaag
      121 cgggacggtt cggagaggat tcgagctgga tgatactggc ggggaaatag cacatgacgg
      181 agctggaaaa acagttgctg agcgcattag agcagctaca gcaggactac tcgaaaaggc
      241 tggacgagtg ggagaacgcc ttcgcggaat ggcggacgat gtctggtctt atgcaacggg
      301 agaacgcggc gctgagcgag cgcgtcacgg gcttgagcag gcaggtgcag agtttgagcg
      361 atcagctgcg ccggttgtcg aaaggctgaa ctcgattgaa gctcacaggc agcaggagcg
      421 ggcggcgcag catcagaaaa cgctggagct ggaacgatcg cagcggcaga aaggttttga
      481 gcttggaatg tagttaatca atgaaaaggg atgcgttatg aagtgtttct gggcttgctc
      541 agtctcagta gttttggtta tgtcatttac agtcgcttct gcggagaaca ttacatacac
      601 aaaaccgtca gccgggaggg acttatatct tacctgtaaa ggttatcagg tgaagggggc
      661 gtctataatt aacgtcgaga aaccttctta ccttgaaggt acaggtgagc aggttgagtt
      721 tgcaatcatt tctctcggtg atgcatctga tggactcaag gttttttttg attcatgggg
      781 tttttcttct tttggattga ttgaaagtca tgtgatgcat gagcactggt ctttagttca
      841 tgttgggggg cgtgtttcag tcaagggtga aaagattgat tattcatttg tagataacca
      901 gccacaggag ggtgggagct ataaacccaa aacaggtgtg ttcctgtatg gctgcattaa
      961 ctctgataaa aggccatctt gggtcgaaaa aatctacaca agaacaggcg tgtttcgagg
     1021 gggcatagaa gactaaaata ctgcgtacag catgaaaatt cattgaacag agtgttagtt
     1081 cattttcgtg catggctatg catacacgca aaacttatcg gcgcgattcc gggcggtttt
     1141 cggtgagaag acgggctctt ttgtggctca ggacggaaaa acgccctgag cgcgtctgag
     1201 cggtgcgcgc aagagatgtt atggtaaatc aattaatggg tatccccatc gttcggctag
     1261 tgtgtttatt gcgttataaa gttcaggtat cccgccattg ctggtgaagt aggtgataaa
     1321 atacataaat ggtctgccgt cattgctgtg ctgatatgca gatgctgaag ttgagtgaag
     1381 ttcccattgc tggctggaac tgctcttgtc atataaggcc gttaacacac actgtggatc
     1441 taaaccacca ttctcatttt ctgaccaggc cactactttg taaacgtgag caccggactc
     1501 aaaagatgcg aaaaaatata atcccggttc agctggtagg atcttcatta gctagcttcc
     1561 ttttgtttat tctgtctgag agacaataac tacctaattc cccgtggtgg gtataaaaaa
     1621 tcacggggag gttaataacc taaacgtttt agttctgctg ctaaacgctt aagactctca
     1681 tctaaatact cgtgattctc ttttagctcg tttttcatta aatcaatgtg acgagataac
     1741 tcaggattgc ctcctgaacg actgaccgga aagtcgtcgc tggaagataa gcggccatgt
     1801 ttactgtaat ccattgctat gcagataagc gttgccaagt cgataacacg atgaagaggt
     1861 aattcttctg attgccgtga ccacttttct ccggtgttgc gccacacttt tgctgatagc
     1921 tcggtatacc cgggggtgtt ccattgagca attccaacgg aaagccccat agcatcagtg
     1981 tcatcagcat aaggtccatc aattcgatca tagttttcta cagcgataat cggtttgtgt
     2041 ttcagatgag tagggatgtt catatcattc tcttttatgt gaatttaggt tgttaattaa
     2101 taaaataaca aaacaactta ttttactaat tagtaagtgt aacattttgt gaattgatgg
     2161 atttgaagtt gttggcgtgg atcttcttga gatcatttat ggctgagcgt aatctcttgc
     2221 tctgaaaacg aaaaaaccac ctggggaggt ggtttgatcg aaggttaggt cagttgggga
     2281 actgcttaac caggtaactg tcttgtgcga gacgagtcac caaaactgtc cttccagtgt
     2341 agccgttctc aggctcccac ttcaagaact ccagataaat ctctcgcaca tctcagttac
     2401 cagtggctgc tgccagtggc gcttttgcat gtctttccgg gttggactca agacgatagt
     2461 taccggacaa ggcgcagcag tcggactgaa cggggggttc gtgcatacag tccatcctgg
     2521 agcgaactgc ctacccggaa ctgagtgtca ggcgtggaat gagacaaacg cggccataac
     2581 agcggaatga caccggtaaa ccgaagggca ggaatgcggg ggagcacgag ggagccatca
     2641 gggggaaacg cctggtatct ctaagccgca tcgggtttcg ccaccactga tttgagcgtc
     2701 tgattttgtg atgctcggca ggggggcgga gcctatggaa aaacggcaac gccgcatcct
     2761 ttttcagccc ttcctgattt ccgcttagtc tctttatcca gccattcgtg agctggcaac
     2821 gcccgccgca gtctcacggc aggagcgcag cgaccgagtg agcgaggagg cgtcatttca
     2881 ccgggatctg catttcgcac ttacacaccg gtgctgcatt tcccggtacc acatgaagca
     2941 ctttcgtaaa ccattactgc gttgtaacat tttaagccag tatacactcc gctagcgcta
     3001 cgtgactggt tcagggctgc gccccgaaac ctgctaaaac cactgacgcg cctgcggctt
     3061 gtccaacacc gcgccgaccg ggaaaagatt tcccgcccgt cccggcgtaa tcaggaggcc
     3121 ggattggcag acaaacgcag caaaatgctc accatgtggg taacggaaga tgagcaccgc
     3181 cgtctgctgg agcgctgcga cggtaaacag cttgcagcct ggatgcgcca gacgtgcctg
     3241 gacgagaaac ccgcccgcgc cggcaagctt ccctcgctct cgccggcgct gcttcgtcag
     3301 cttgccggca tggggaacaa cctcaaccag attgcccggc aggttaacgc cggtggtggc
     3361 agcgggcacg accgcgtgca ggtcgtcgcc gcgctgatgg ccatcgatgc cggactcgag
     3421 cggctgcggc atgccgtgct ggaaaagggg gcagacgatg atcgttaagt ttcacccgcg
     3481 agggcgcggc ggtggcgccg gtccggtgga ttatctgctg gggaaagacc gacagcgcga
     3541 cggcgccacc gttctgcagg ggaagccgga agaagtcagg gagcttatcg acgcctcgcc
     3601 ctacgcaaaa aagtacacat ccggcgtcct gtcctttgcc gaaaaggatt taccgcccgg
     3661 gcagcgcgaa aagctgatgg cgagctttga acgtgttctg atgcccggac tcgataaaga
     3721 ccagtacagc gtgctgtggg ttgagcacca ggataagggg cggctggagc tgaacttcct
     3781 gatcccgaac acggagctgc tgaccggcaa gcgtctccag ccgtattacg accgcgccga
     3841 ccgtccgcgc attgatgcct ggcagaccat cgtgaacggc aggctggggc tgcatgaccc
     3901 gaacgcgcct gaaaaccggc gggcgctggt cacgccgtcc gcgctgccgg aaacgaagca
     3961 ggaagccgct caggcaatta cacggggttt actggcctta gcctcgtccg gggagctgaa
     4021 aacccgccag gacgtcactg aggcgctgga aagcgcaggt tttgaggtgg tacgcaccac
     4081 aaaaagcagc atcagcattg ccgacccgga cggggggcga aacatccgac tgaagggagc
     4141 catctatgaa cagtctttta acgctggcaa aggacttaga gcagaaatcg aaagcgcagc
     4201 agcagagtac cggcgagatg ctgaaagccg cattcagcga gcacgagaag tctgtcagag
     4261 cggaactgag cgaaagcgag aagagaatca gcgccgccat cctcgaccac gaccggaagc
     4321 tgtcctcagc catgagccag cgcacgaaag gcatggtgcg tatggtcagc cagacgtggc
     4381 tgaccatcgt cctggtgtct gcactgctga cagcatcggg cgcaagcatt ctgtggtggc
     4441 aggggcagca gatactcgac a
//
