LOCUS       NZ_CP120555             4241 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain B1172 plasmid pB1172_4241, complete
            sequence.
ACCESSION   NZ_CP120555
VERSION     NZ_CP120555.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33748627
            Assembly: GCF_029536615.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4241)
  AUTHORS   Fedrova,P., Hrala,M., Micenkova,L., Tom,N., Bosak,J. and Smajs,D.
  TITLE     Complete genome sequences of five Escherichia coli strains with
            probiotic features
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4241)
  AUTHORS   Fedrova,P., Hrala,M., Micenkova,L., Tom,N., Bosak,J. and Smajs,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-MAR-2023) Department of Biology, Masaryk University,
            Kamenice 5, Brno 62500, Czech Republic
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 416x
            Sequencing Technology :: Illumina; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029536615.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:44:07
            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)                     :: 5,290
            CDSs (total)                      :: 5,174
            Genes (coding)                    :: 4,916
            CDSs (with protein)               :: 4,916
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 258
            CDSs (without protein)            :: 258
            Pseudo Genes (ambiguous residues) :: 0 of 258
            Pseudo Genes (frameshifted)       :: 110 of 258
            Pseudo Genes (incomplete)         :: 182 of 258
            Pseudo Genes (internal stop)      :: 45 of 258
            Pseudo Genes (multiple problems)  :: 64 of 258
            Pseudo Genes (short protein)      :: 1 of 258
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120555.1.
            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..4241
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="B1172"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pB1172_4241"
                     /geo_loc_name="Czech Republic"
                     /collection_date="2009"
     gene            join(4172..4241,1..69)
                     /locus_tag="P5710_RS26380"
                     /old_locus_tag="P5710_26380"
                     /pseudo=""
     CDS             join(4172..4241,1..69)
                     /locus_tag="P5710_RS26380"
                     /old_locus_tag="P5710_26380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            466..909
                     /locus_tag="P5710_RS26385"
                     /old_locus_tag="P5710_26385"
     CDS             466..909
                     /locus_tag="P5710_RS26385"
                     /old_locus_tag="P5710_26385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001247799.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_021563167.1"
                     /translation="MKPIQLIYSILIYLFIHLGASASDKIYSAKEILLNLEVGSFHNSL
                     SEGVPGEYKNHKTFKETEFTHGEYDKNKYFSLTNNDKSWMISLKIIGIKNDEYTVCFGD
                     FSIIRPPTYVAVNPLILKKTKSGNFRVVKEIKKSIPGCAIYHH"
                     /name="hypothetical protein"
     gene            complement(950..2023)
                     /gene="pst"
                     /locus_tag="P5710_RS26390"
                     /old_locus_tag="P5710_26390"
     CDS             complement(950..2023)
                     /gene="pst"
                     /locus_tag="P5710_RS26390"
                     /old_locus_tag="P5710_26390"
                     /EC_number="3.2.1.17"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001285181.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="pesticin"
                     /protein_id="WP_001285181.1"
                     /translation="MSDSMIVNGSGSVPAFLFSGSTLSSYRPNFEANSITIALPHYVDL
                     PGRSNFKLMYIMGFPIDTEMEKDSEFSNKIRQESKISKTEGTVSYEQKITVETGQEKDG
                     VKVYRVMVLEGTIAESIEHLDKKENENILNNNRNRIVLADNTVINFDNISQLKEFLRRS
                     VNIVDHDIFSSNGFEGFNPTSHFPSNPDAPYFDSTGVTFGSGVDLGQRSKQDLLNDGVP
                     QSIADKLDGYYMLRGQGAYDKVKSNPLTLSDNEAHLLSNIYIDKFSHKIEGLFNDANIG
                     LRFSDLPLRTRTALVSVGYQKGYYLPKTASDVWDALVAKDWNGLVTAFNDFGGSTSERR
                     KREGALVQQDIDSGLLK"
                     /name="pst"
     gene            2253..2549
                     /locus_tag="P5710_RS26395"
                     /old_locus_tag="P5710_26395"
     CDS             2253..2549
                     /locus_tag="P5710_RS26395"
                     /old_locus_tag="P5710_26395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679964.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001679964.1"
                     /translation="MSKTKSGRHRLSKTDKRLLAALIAAGYEERTARDLIQKHVYTLTQ
                     ADLRHLVSEISNGVGQSQAYDAIYQARRIRLARKYLNGKKPEEGLNAWKGDLP"
                     /name="hypothetical protein"
     Typing          complement(3590..3673)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="97.0"
                     /evalue="1.13e-36"
     Typing          3687..4241
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.201"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aaaaggcacg acttaacgcc actggcagca gccattggta actggaggtt tgcgggaatt
       61 gatctctaaa agaagtcttg aagtaatgcc ctgactgcgg ctacactaga agaacaagtt
      121 ttggtgactg ttcctgctaa gaatccagtt accgtccggt ttcgaagagt taccagctca
      181 acgaacccga actaacccgc cttcaggcgg gttttttcgt ttacaggcag cagattacgc
      241 gctgataaca aggatctcaa gaagatcctt tgatcttttt ttctactgaa ccgctatttc
      301 catcaattca gaggaggacg atggaacccc ttcccctctc cccctttagc acctgtaatt
      361 tattcgccaa aaagaaaata actatctatc cgcaatacta ttgttacatt acaatcggga
      421 ttaacagcca tcatttatag tagaactaat tagcaaggta tagatatgaa gccaatacaa
      481 ttaatatatt caatactaat ctatttattt atccatcttg gtgcttcggc atccgacaaa
      541 atatattcag caaaagaaat attactgaac cttgaagtag gtagttttca taattcgcta
      601 tcagagggag tcccgggaga gtacaaaaac cacaaaacat ttaaagagac cgagttcact
      661 cacggtgaat atgataaaaa caagtatttt tcacttacga ataatgataa gtcatggatg
      721 atttcattaa agataatcgg aataaaaaac gatgaataca ctgtctgttt cggcgacttc
      781 tccatcatta gaccaccaac atatgtagcc gtaaatccgc tgattttaaa aaaaacgaag
      841 tccggtaatt tcagagtagt aaaagaaata aaaaaatcaa tccctggctg tgcaatatat
      901 catcattaaa aaattattcc cctcattgtt gttatgaggg gaacacggat tatttcaata
      961 atcctgaatc aatatcctgt tgaacaaggg ccccttctct ttttcgtcgt tccgatgtac
     1021 ttccaccaaa atcattaaat gcagtaacaa gtccattcca gtcttttgca accaatgcat
     1081 cccatacatc agaagccgtt tttggtaaat agtacccttt ctgataacca acagacacca
     1141 gtgctgtacg ggttctcaaa ggaagatcac tgaatcgaag accgatatta gcatcattga
     1201 aaagcccttc aatcttatgt gagaatttat caatataaat attagataag agatgagctt
     1261 cattatcgga aagtgtcagc ggatttgatt ttactttatc atatgcaccc tgtccacgaa
     1321 gcatataata tccgtcaagt ttatctgcaa tactctgagg cacgccatca ttcaacaagt
     1381 cctgtttact tcgctgacca aggtcaacac ctgagccgaa tgttacacct gtagagtcaa
     1441 aatatggcgc gtcaggattg gacggaaaat gacttgtcgg attaaaccct tcaaaaccat
     1501 tactggagaa aatatcgtgg tcaacaatat ttaccgaacg acgtaaaaat tccttcagtt
     1561 gactaatatt gtcaaagtta atgacagtgt tgtccgctag gacgatgcga tttcggttat
     1621 tattcagaat gttttcattc tctttcttat cgagatgttc aatagattct gcaattgttc
     1681 cttcaagaac cataacacgg taaactttta caccgtcttt ttcctgacct gtttcaacag
     1741 ttattttctg ttcgtaagat acagtccctt cagtttttga aattttactt tcctgacgga
     1801 tcttatttga aaattcactg tccttttcca tctccgtatc aatcggaaac cccatgatat
     1861 acatcagttt gaaattactg cgaccaggaa gatccacata atgaggcaat gcaattgtaa
     1921 ttgaattggc ttcaaaattt ggcctgtaac tactcaacgt gctacctgag aaaagaaaag
     1981 caggtacact acctgagcca ttcacaatca tcgaatctga cataagaaaa tcctctttaa
     2041 ctttaaaaaa caataaatta acaaaacaat actgtacaca taaccactgg ttatatatac
     2101 agttgaaaat tacgctgctt tatttttcct gtcaatagta tgaattttca tttttgtgat
     2161 ctaaatcacc cttataaaaa tcaggaaggg aagattcgca gcagaaaaac agcaccggat
     2221 aacatcagga gaaaaagcag agaggagata acgtgagcaa aacaaaatct ggtcgccacc
     2281 gactgagcaa aacagacaaa cgcctgctgg ctgcacttat cgctgccgga tatgaagagc
     2341 ggacagcccg tgacctcatc cagaaacacg tttacacact gacacaggcc gacctgcgcc
     2401 atctggtcag tgaaatcagt aacggtgtgg gacagtcaca ggcctacgat gcgatttacc
     2461 aggcaagacg cattcgtctc gcccgcaaat acctgaacgg aaaaaaaccg gaagaagggc
     2521 tgaacgcctg gaagggtgat ttaccataat cccttattgt gcgcaccgtt aaaacgcgct
     2581 cagcgcgctt ctggcgcaaa aaccgtaaaa agggatgttt tcccccgggt aaaccggaaa
     2641 aatgcgtcag gaacgctttc agcgcgttgc atgactatgc ataaaactga atggcgagcg
     2701 gtttgggcgc gtctgatgcc cataaggcgt attttctgac gttttcagcc ctgataagaa
     2761 gaaatcagac tgtagttaca gacgagtcgt gagcgattca ctacgggagt cgtcggcgag
     2821 tcatccagta tttttcctcg cgactctctg gcgactcgcc ttctctgaac accagagcga
     2881 cagtgtgttg agtcatcgat aaatcaccga cgactcgttg ccgagtcatc cagtagtcgc
     2941 cgacgacccg cttttgtata aatctgaata agaaaataca ttttttaaaa cataacaacc
     3001 tgatttaaaa aagaaatcag caaaaagtta gttttgcgtg gggtgtgggc atccggggca
     3061 tgagaacaga ctcgcgtttt tctggaggaa ctgcggggat ttttgattaa acagtactca
     3121 tcgcagagcg gaattttatg caacgccggc tgtgctgcac ggggattttt aatcccccgg
     3181 cccgttattc atctccacgg acgacgggga tacataaacc cgacagcaga ggacgggtga
     3241 gcgcgaatcc cagagatgat gaaaaaagag gcagagaaac gcgcccgggc acgttttatc
     3301 ttattgctgt ggtgttgtcc agggtgtcgg ggctgtgccc tgaccaggtg gcatttgtct
     3361 gattgcgcgt gcgcggtccg acaaatgcac atcctgcccc gtcctgtacg tgtttttttt
     3421 caccagaaca acttcacgaa gtggcggatg aacgctacca acgttgccgg gaacgcttcg
     3481 gcgatgatgg cataacgggc tgatacaggc agctcccgga gacggtcaca gcttgcctgt
     3541 gagcggatgc caggagccga caagcccgtc agggcgcgtc agcgggtttt agcgggtgtc
     3601 ggggcgcagc catgacccag tcacgtagcg atagcggagt gtatactggc ttaaccatgc
     3661 ggcatcagtg cgggttgtat gaaaagtgcg ccataccggg tgtgaaatgc cgcacagatg
     3721 cgtaaggaga aaatgcacgt ccaggcgctt ttccgcttcc tcgctcactg actcgctacg
     3781 ctcggtcgtt cgactgcggc gagcggtatc tactcactca aaaacgaaat gctgttatcc
     3841 acagaatcag gggataacgc cggaaagaac atgtgagcaa aagaccagga acaggaagaa
     3901 ggccgcgccg atggcgtttt tccataggct ccgcccccct gacgagcatc acaaaaatcg
     3961 acgctcaagt cagaggtggc gaaacccgac aggactataa agataccagg cgtttccccc
     4021 tggaagctcc ctcgtgcgct ctcctgttcc gaccctgccg cttaccggat acctgtccgc
     4081 ctttctccct tcgggaagcg tggcgctttc tcatagctca cgctgttggt atctcagttc
     4141 ggtgtaggtc gttcgctcca agctgggctg tgtgcacgaa ccccccgttc agcccgaccg
     4201 ctgcgcctta tccggtaact atcgtcttga gtccaacccg g
//
