LOCUS       NZ_CP051705             2337 bp    DNA     linear   CON 13-JUN-2023
DEFINITION  Escherichia coli strain SCU-125 plasmid pSCU-125-5, complete
            sequence.
ACCESSION   NZ_CP051705
VERSION     NZ_CP051705.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14609785
            Assembly: GCF_012934655.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2337)
  AUTHORS   Stephens,C., Arismendi,T., Wright,M., Gonzalez,A., Gill,M.,
            Hartman,A., Pandori,M. and Hess,D.
  TITLE     F plasmids are the primary drivers of antibiotic resistance in
            human-associated commensal E. coli
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2337)
  AUTHORS   Stephens,C., Arismendi,T., Wright,M., Gonzalez,A., Gill,M.,
            Hartman,A., Pandori,M. and Hess,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-APR-2020) Biology, Santa Clara University, 500 El
            Camino Real, Santa Clara, CA 95054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 14x
            Sequencing Technology :: Illumina MiSeq, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/13/2023 04:29:13
            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)                     :: 5,227
            CDSs (total)                      :: 5,100
            Genes (coding)                    :: 4,890
            CDSs (with protein)               :: 4,890
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 99
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 210
            CDSs (without protein)            :: 210
            Pseudo Genes (ambiguous residues) :: 0 of 210
            Pseudo Genes (frameshifted)       :: 76 of 210
            Pseudo Genes (incomplete)         :: 138 of 210
            Pseudo Genes (internal stop)      :: 44 of 210
            Pseudo Genes (multiple problems)  :: 43 of 210
            Pseudo Genes (short protein)      :: 3 of 210
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051705.1.
            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..2337
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SCU-125"
                     /isolation_source="rectal swab from healthy college
                     student"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSCU-125-5"
                     /geo_loc_name="USA: California"
                     /collection_date="2016"
     gene            complement(174..587)
                     /locus_tag="HHJ38_RS25975"
                     /old_locus_tag="HHJ38_26010"
     CDS             complement(174..587)
                     /locus_tag="HHJ38_RS25975"
                     /old_locus_tag="HHJ38_26010"
                     /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_028132811.1"
                     /translation="MGAKFLDQKTGVILEEPEFVKLYIRDLCRVKGLSATQYKIFTFML
                     ANMNTDNVVSFGPRTKEKFLSEHSIKPQTFNNNVSQLIESCLISRIARNEFLVNKKYAV
                     KVDWAKVQKIVWTTTYSNEGIDSTVTIAPKKTD"
                     /name="hypothetical protein"
     gene            1996..>2337
                     /gene="mobA"
                     /locus_tag="HHJ38_RS25980"
                     /old_locus_tag="HHJ38_26015"
     CDS             1996..>2337
                     /gene="mobA"
                     /locus_tag="HHJ38_RS25980"
                     /old_locus_tag="HHJ38_26015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001107325.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_099717046.1"
                     /translation="MTKNKRSGSEVRQRTKVITLRVNNRIANEIRRRAKSEGLTISEYI
                     RTTSLNNEIKQRVPSRYLDELIQLGRMQKKLFDKGKRPKDKEYLDVMHKIISLCAEMKE
                     VTQRISDIYK"
                     /name="mobA"
     Typing          955..1213
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.528"
                     /coverage="100.0"
                     /evalue="1.5e-65"
ORIGIN
        1 aaaatggatt taataaaaga agaaataaaa gcaataaaaa aaatacataa aaataaatac
       61 ccaggttcca acttatttaa ttgagcagaa cataggtctt cataaaaatt taaagaccta
      121 taatagaatt agcgacattt tgttttatcg aaatctttta caatcataag aaattaatcc
      181 gtttttttcg gggctatcgt cactgttgaa tcaatccctt cattactgta agttgttgtc
      241 catactatct tttgtacttt cgcccaatca actttaactg cgtatttttt attaaccaaa
      301 aattcatttc tggctattct agaaattaaa catgactcaa tcagttgaga cacattatta
      361 ttaaatgttt gtggtttaat tgaatgttct gataaaaact tttctttggt tcttggtcca
      421 aatgaaacaa cattatcagt attcatatta gcaagcatga acgtaaaaat tttgtattgc
      481 gttgctgata gccctttaac acggcataaa tcacggatat acagcttcac gaactccggc
      541 tcttccaaaa ttacgccagt tttttgatct aaaaatttcg ctcccattct cacctcgcag
      601 gtaatttagt taccgtttta tcggtatctt atgtatgttc cacaaccgag taaatacttt
      661 ttttccggta tttgattagc aacaaaaaca gtattccggt atttgaaata ccgctgagcg
      721 gtatttcaac ctccgctcag cggtaaaaac tttcccgctg agcggtatat ctattcccgc
      781 tgagcggtat ttagtttgcc tctaggcctt gtcacacctg attttcctat ctgtctgtga
      841 atctatctta gatctcgtgc gtaagtgcac tatgccaata ctggttccct tccgcttcct
      901 cgcccactcg cgagcctagc ggctcggtcg ctggggctgc ggcgagcggt gccacctctc
      961 gcatatcgtt gacgatcccg atttgatctc aggcgatcga gtcgctggcc accggttaaa
     1021 cgcgctcaaa gcctcccaga cgcacaaaac gggggttaaa tgcccgtcag ggcatggaag
     1081 gcgcgaaaaa cgcttacaga ggttttcaga aggttaggcg cgccgatacc cctaaccagg
     1141 ggctttcagg tcgctaggaa ccgcgccagc cccctgcaag gcccatttgc acggaacaga
     1201 cagccactcg gttggtaggt ggtcgtagac cgtcggtgtt acagcgatgg gggtctgggg
     1261 ttctccccag acggtttccg gttgcgctca aggcgctgcc ggaaccgtgg cggcttcgat
     1321 ggtgaagggt gagcgcgttt ccaagaggtt ttccaggcaa gctatgactg aactgaacag
     1381 attgaacgag gaggaaacgc gctcagacgc tttgtagcgc gcttttctgt gtcaggcaag
     1441 tttgttgtgt cttttgcctt tcaggttgtt agcagctggc ggagcactgc acggggatta
     1501 atgctcccat tgctaggatg aaataaagat taggagcgaa gttaagttat atttttaata
     1561 tataaacgcg atatcaataa ctcacatagt tatattttat gcatatgcta ccatcttgct
     1621 cttttgcctc ctgctctctg gacgaatccc gcattaccaa caggcaatgg attatataac
     1681 caagaagatc taatctttat tcctctaata atccacaaac gacagacaac aaagacatca
     1741 attaattcgg tgttatttat taaataacaa gcaataattt ttaaaatctg tgtaaataat
     1801 attgaatgaa gcatcatttt tttgtatcag aaataccagg ttacgacgcg gtattttatt
     1861 ttcgtcgaaa agttgcagcg gaaaatggga caggatgtgt attcgtcata ccgcgaatac
     1921 attcgcttgc atgagaatac ctcctgtcag ggcaagcccc gacaccccaa acgtgcaaaa
     1981 tggagaatca ttgcgatgac taaaaataag cgtagcggtt cagaagtacg gcagaggact
     2041 aaggttatca cccttagagt aaataacaga atcgcaaacg aaatcagacg gcgagcgaag
     2101 agcgaagggc tgactatttc agaatatata aggacaacaa gcttaaataa tgaaataaaa
     2161 cagcgcgttc cttccagata tttagatgaa ttaatccaac ttggtcggat gcagaagaaa
     2221 ttatttgata aagggaagag accgaaggac aaagagtatc tggatgtgat gcataaaata
     2281 atttcacttt gtgctgaaat gaaagaagta acacagcgaa tttctgatat atataaa
//
