LOCUS       NZ_CP107150             4251 bp    DNA     circular CON 14-AUG-2023
DEFINITION  Escherichia coli strain R14 plasmid pR14-S7K7-3, complete sequence.
ACCESSION   NZ_CP107150
VERSION     NZ_CP107150.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31158874
            Assembly: GCF_030708535.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4251)
  AUTHORS   Jaen-Luchoro,D., Kahnamouei,A., Yazdanshenas,S., Lindblom,A.,
            Samuelsson,E., Ahren,C. and Karami,N.
  TITLE     Comparative Genomic Analysis of ST131 Subclade C2 of ESBL-Producing
            E. coli Isolates from Patients with Recurrent and Sporadic Urinary
            Tract Infections
  JOURNAL   Microorganisms 11 (7), 1622 (2023)
   PUBMED   37512795
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4251)
  AUTHORS   Jaen-Luchoro,D., Kahnamouei,A., Yazdanshenas,S., Lindblom,A.,
            Samuelsson,E., Ahren,C. and Karami,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-OCT-2022) Infectious Diseases, University of
            Gothenburg - CCUG, Guldhedsgatan 10a, Box 7193, Gothenburg, Vastra
            Gotaland 40234, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 554x
            Sequencing Technology :: Illumina NovaSeq, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/11/2023 07:58:13
            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)                     :: 5,402
            CDSs (total)                      :: 5,289
            Genes (coding)                    :: 5,029
            CDSs (with protein)               :: 5,029
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 260
            CDSs (without protein)            :: 260
            Pseudo Genes (ambiguous residues) :: 0 of 260
            Pseudo Genes (frameshifted)       :: 100 of 260
            Pseudo Genes (incomplete)         :: 189 of 260
            Pseudo Genes (internal stop)      :: 42 of 260
            Pseudo Genes (multiple problems)  :: 63 of 260
            Pseudo Genes (short protein)      :: 3 of 260
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP107150.1.
            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..4251
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="R14"
                     /isolation_source="human"
                     /db_xref="taxon:562"
                     /plasmid="pR14-S7K7-3"
                     /geo_loc_name="Sweden: Gothenburg"
                     /collection_date="2018"
     gene            206..619
                     /locus_tag="OGM43_RS26980"
                     /old_locus_tag="OGM43_26950"
     CDS             206..619
                     /locus_tag="OGM43_RS26980"
                     /old_locus_tag="OGM43_26950"
                     /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_023206708.1"
                     /translation="MKIIKWASLSGVLLISACGVSQNEVNSANYGSKPIDNDAKVIGMI
                     KESLKDPDSLKVISITTPARGFSKYGFGSTEHGWFTTITYNAKNSYGGYVGAKSSTFVY
                     LNGDYKVAVPMSNGERVMLDKVSFSCKDNCQTK"
                     /name="hypothetical protein"
     gene            complement(647..802)
                     /locus_tag="OGM43_RS26985"
                     /old_locus_tag="OGM43_26955"
     CDS             complement(647..802)
                     /locus_tag="OGM43_RS26985"
                     /old_locus_tag="OGM43_26955"
                     /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_167493803.1"
                     /translation="MNSKQKCSHSNLEKEYYLGSATGDYKCLDCGEVGFGKDWPEKERS
                     KNDNEA"
                     /name="hypothetical protein"
     gene            1849..2172
                     /locus_tag="OGM43_RS26990"
                     /old_locus_tag="OGM43_26960"
     CDS             1849..2172
                     /locus_tag="OGM43_RS26990"
                     /old_locus_tag="OGM43_26960"
                     /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_170874913.1"
                     /translation="MLTMWVTEDEHRRLLDRCDGKQLAAWMRQTCLDEKPARAGKLPSL
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2381..>2815
                     /locus_tag="OGM43_RS26995"
                     /old_locus_tag="OGM43_26965"
                     /pseudo=""
     CDS             2381..>2815
                     /locus_tag="OGM43_RS26995"
                     /old_locus_tag="OGM43_26965"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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"
     gene            2850..3335
                     /locus_tag="OGM43_RS27000"
                     /old_locus_tag="OGM43_26970"
     CDS             2850..3335
                     /locus_tag="OGM43_RS27000"
                     /old_locus_tag="OGM43_26970"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_211652428.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESE
                     KRISDAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLTASGASILWWQGQQIL
                     DNYTTIREQKRTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            3339..3554
                     /locus_tag="OGM43_RS27005"
                     /old_locus_tag="OGM43_26975"
     CDS             3339..3554
                     /locus_tag="OGM43_RS27005"
                     /old_locus_tag="OGM43_26975"
                     /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            3683..4201
                     /locus_tag="OGM43_RS27010"
                     /old_locus_tag="OGM43_26980"
     CDS             3683..4201
                     /locus_tag="OGM43_RS27010"
                     /old_locus_tag="OGM43_26980"
                     /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_011017199.1"
                     /translation="MKCFWACSVSVVLVMSFTVASAENITHTKPLARSDLYLTCKGYQV
                     KGASVINVEKPSYLEGTGEQVEFAIISLGDASDGLKVFFDSWGFSPFGLIESHVMHEHW
                     SLVHVGGRVSVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCINSDKRPSWVEKIYTRT
                     GVFRGGIED"
                     /name="hypothetical protein"
     Typing          complement(1094..1583)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.501"
                     /coverage="81.0"
                     /evalue="0.0"
     Typing          2163..3646
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.717"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cgtgcatggc tatgcataca cgcaaaactt atcagcgcga ttccgggcgg ttttcggtga
       61 gaagacgggc tcttttgtgg cttaggacgg aaaaacgccc tgagcgcgtc tgagcggtgc
      121 gcccaagaga tgttatggta aatctatcta taaatgtcta tatagtggat ttcctatagt
      181 tgtttggaaa atgacaagga tatatatgaa aataattaag tgggcttcac tgtctggtgt
      241 tctgttaata tctgcttgtg gtgtttctca gaacgaagta aatagtgcta attatggttc
      301 aaaaccaata gataatgatg cgaaagtgat tggtatgatt aaagagagtc taaaagatcc
      361 tgattctcta aaagttatat caataaccac ccccgccaga ggtttttcta agtatggctt
      421 tggctctaca gagcatggct ggttcactac tatcacatat aatgcaaaaa actcttatgg
      481 cggttatgtt ggtgctaagt ccagtacttt cgtttactta aacggagatt ataaagtggc
      541 agtgccaatg tctaatggtg agagggttat gttagataaa gtgtcatttt catgtaaaga
      601 caattgccaa actaaatgat aaaaaaggcc gcaatagcgg ccttttttat gcttcgttat
      661 catttttact tctttctttt tctggccagt ccttcccaaa accaacctcc ccgcaatcca
      721 aacatttata atcgcctgtg gcgctaccca agtagtattc tttttctaga tttgaatgag
      781 aacatttttg tttgctgttc actacagtca cctttggata ttcatttatt cgtgaatgat
      841 ttttatctat accgacattg ttaaatgatg gaaagatctt cttgagatcc tttttttcta
      901 cgcgtaatct tcatgactgt aaacgaaaaa accaccctgg caggtggttt ttcgaaggtt
      961 agttaatcct ggcagattct ctaaccgtgg taacagtctt gtgcgagaca tgtcaccaaa
     1021 tctgtccttc cagtgtagcc tcagtcaggc cgccacttca agaactctga acacatctct
     1081 cgcacaaacc tgttaccagt ggctgctgcc agtggcgttt tgtcgtgtct ttccgggttg
     1141 gactcaagac gatagttacc ggataaggcg cagcagtcgg actgaacggg gggttcgtgc
     1201 atacagtcca gcttggagcg aactgcctac ccggaactga gtgtcaggcg tggaatgaga
     1261 caaacgcggc cataacagcg gaatgacacc ggtaaaccga aaggcaggaa caggagagcg
     1321 cacgagggag ccaccagggg gaaacgcctg gtatctttaa gtcctgtcgg gtttcgccac
     1381 cactgatttg agcgtccgat tctgtgatgc ttgtcagggg ggcggagcct atggaaaaac
     1441 ggcagcgccg cggccttctc gtttccctgt taagttccct cctggcatct ccccggaaat
     1501 ttccgcccca ttcgtaagcc ggtaccgctc gccgcagccg aacgaccgag cgtagcgagt
     1561 cagtgagcga ggaagcggaa tatcaccggt cctgcatttt ctgcttacgc gcccgccatg
     1621 gcattacacc tgctttatgt ggcatctatg cattatgttt ctgcgatgtt acattttaag
     1681 ccagtataca ctccgctagc gctacgtgac tggttcaggg ctgcgccccg aaacccgcta
     1741 aaaccactga cgcgcctgcg gcttgtccaa caccgcgccg accgggaaaa gatttccagc
     1801 ccgtcccggc gttatcagga ggccggattg gcagacaaac gcagcaaaat gctcacgatg
     1861 tgggtgaccg aagatgagca ccgccgtctg ctggatcgct gcgacggtaa acagcttgca
     1921 gcctggatgc gccagacgtg cctggacgag aaacccgccc gcgccggcaa gcttccctcg
     1981 ctctcgccgg cgctgcttcg tcagcttgcc ggcatgggga acaacctcaa ccagattgcc
     2041 cggcaggtta acgccggtgg tggcagcggg cacgaccgcg tgcaggtcgt cgccgcgctg
     2101 atggccatag atgccggact cgagcggctg cggcatgctg tgctggaaaa gggtgcagac
     2161 gatgatcgtt aagtttcacc cgcgagggcg cggcggtggc gccggtccgg tggattatct
     2221 gctggggaaa gaccgacagc gcgacggcgc caccgttctg caggggaagc cggaagaagt
     2281 cagggagctt atcgacgcct cgccctacgc aaaaaagtac acatccggcg tcctgtcctt
     2341 tgccgaaaag gatttaccgc ccgggcagcg cgaaaagctg atggcgagct ttgaacgtgt
     2401 tctgatgccc ggactcgata aagaccagta cagcgtgctg tgggttgagc accaggataa
     2461 ggggcggctg gagctgaact tcctgatccc gaacacggag ctgctgaccg gcaagcgtct
     2521 ccagccgtat tacgaccgcg ccgaccgtcc gcgcattgat gcctggcaga ccatcgtgaa
     2581 cggcaggctg gggctgcatg acccgaacgc gcctgaaaac cggcgggcgc tggtcacgcc
     2641 gtccgcgctg ccggaaacga agcaggaagc cgctcaggca attacacggg gtttactggc
     2701 cttagcctcg tccggggagc tgaaaacccg ccaggacgtc actgaggcgc tggaaagcgc
     2761 aggttttgag gtggtacgca ccacaaaaag cagcatcagc attgccgacc cggacggggg
     2821 gcgaaacatc cgactgaagg gagccatcta tgaacagtct tttaacgctg gcaaaggact
     2881 tagagcagaa atcgaaagcg cagcagcaga gtaccggcga gatgctgaaa gccgcattca
     2941 gcgagcacga gaagtctgtc agagcggaac tgagcgaaag cgagaagaga atcagcgacg
     3001 ccatcctcga ccacgaccgg aagctgtcct cagccatgag ccagcgcacg aaaggcatgg
     3061 tgcgtatggt cagccagacg tggctgacca tcgtcctggt gtctgcactg ctgacagcat
     3121 cgggcgcaag cattctgtgg tggcaggggc agcagatact cgacaattac acgaccatcc
     3181 gggagcagaa gcgcacgcag gccatgctgt ccgagaggaa cagcggcgtg cagctctcga
     3241 cctgcggaga gcagagacgc cgctgcgtga gggtgaaccc ggaagcggga cggttcggag
     3301 aggattcgag ctggatgata ctggcgggga aatagcacat gacggagctg gaaaaacagt
     3361 tgctgagcgc attagagcag ctacagcagg actactcgaa aaggctggac gagtgggaga
     3421 acgccttcgc ggaatggcgg acgatgtctg gtcttatgca acgggagaac gcggcgctga
     3481 gcgagcgcgt cacgggcttg agcaggcagg tgcagagttt gagcgatcag ctgcgccggt
     3541 tgtcgaaagg ctgaactcga ttgaagcaca caggcagcag gagcgggcgg cgcagcatca
     3601 gaaaacgctg gagctggaac gatcgcagcg gcagaaaggt tttgagcttg gaatgtagtt
     3661 aatcaatgaa aagggatgcg ttatgaagtg tttctgggct tgctcagtct cagtagtttt
     3721 ggttatgtca tttacagtcg cttctgcgga gaacattaca cacacaaaac cgttagccag
     3781 gagcgactta tatcttacct gtaaaggtta tcaggtgaag ggggcgtctg taattaacgt
     3841 cgagaaacct tcttaccttg aaggtacagg tgagcaggtt gagtttgcaa tcatttctct
     3901 cggtgatgca tctgatggac tcaaggtttt ttttgattca tggggttttt ctccttttgg
     3961 attgattgaa agtcatgtaa tgcatgagca ctggtcttta gttcatgttg gggggcgtgt
     4021 ttcagtcaag ggtgaaaaga ttgattattc atttgtagat aaccagccac aggagggtgg
     4081 gagctataaa cccaaaacag gtgtgttcct gtatggctgc attaactctg ataaaaggcc
     4141 atcttgggtc gaaaaaatct acacaagaac aggcgtgttt cgagggggca tagaagacta
     4201 aaatactgcg tacagcatga aaattcattg aacagagtgt tagttcattt t
//
