LOCUS       NZ_CP051852             1005 bp    DNA     linear   CON 10-JAN-2024
DEFINITION  Escherichia coli strain SCU-101 plasmid pSCU-101-3, complete
            sequence.
ACCESSION   NZ_CP051852
VERSION     NZ_CP051852.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14609767
            Assembly: GCF_017815815.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1005)
  AUTHORS   Stephens,C., Arismendi,T., Wright,M., Hartman,A., Gonzalez,A.,
            Gill,M., Pandori,M. and Hess,D.
  TITLE     F Plasmids Are the Major Carriers of Antibiotic Resistance Genes in
            Human-Associated Commensal Escherichia coli
  JOURNAL   mSphere 5 (4), e00709-20 (2020)
   PUBMED   32759337
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1005)
  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                   :: 91x
            Sequencing Technology :: Illumina MiSeq, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 02:10:20
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,245
            CDSs (total)                      :: 5,129
            Genes (coding)                    :: 4,868
            CDSs (with protein)               :: 4,868
            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)              :: 261
            CDSs (without protein)            :: 261
            Pseudo Genes (ambiguous residues) :: 0 of 261
            Pseudo Genes (frameshifted)       :: 122 of 261
            Pseudo Genes (incomplete)         :: 165 of 261
            Pseudo Genes (internal stop)      :: 60 of 261
            Pseudo Genes (multiple problems)  :: 74 of 261
            Pseudo Genes (short protein)      :: 5 of 261
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051852.1.
            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..1005
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SCU-101"
                     /isolation_source="rectal swab from healthy college
                     student"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSCU-101-3"
                     /geo_loc_name="USA: California"
                     /collection_date="2015"
     gene            <1..>1005
                     /locus_tag="HHJ20_RS26325"
     CDS             <1..>1005
                     /locus_tag="HHJ20_RS26325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000781922.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=3
                     /transl_table=11
                     /product="Ig-like domain-containing protein"
                     /protein_id="WP_226912467.1"
                     /translation="DTLTLTVTKPDGTTDTVEHTLTADEVAAGKADVTIPADKVTADGQ
                     YSVTAEITDPAGNTSGQGQPADFAVDTVAPSAPVLKAEDDGSVSVELPGDANKGDTVDV
                     TFEDEKGGKHTVTLEKGDNGWTSSDPTLIPDSTGDKATIPADNVKDNSEVTGVAKDPSG
                     NESDPSTVTSKTDGVADAPVLSIPEVTDGYANADELKDGLQAEVTLPAGTAEGAVITLT
                     VTRPDKTTENVTHTVTKDEVAAGKVSMDIPKDAVIDGQNSVSVTLTQGSNPAKPGNVVD
                     FAADTQIPGDTDGDGATDATPVVAIPEAADGVNAEELKDGVQTEVTVPKGSAA"
                     /name="Ig-like domain-containing protein"
ORIGIN
        1 gtgataccct gacgctgacg gtcaccaaac cggacggcac gacggacacg gtggagcaca
       61 cgctgaccgc agatgaagtg gctgcaggta aagctgatgt gaccattccg gcggataaag
      121 tgacggcaga tggtcagtat tctgtaaccg cggaaatcac agacccggca ggtaacacca
      181 gtggccaggg ccagccggct gacttcgcag tggatacagt ggcgccgtcg gcaccggtat
      241 taaaagcaga ggatgatggt tctgtttctg ttgagctgcc gggtgatgcc aataaaggcg
      301 ataccgtgga tgtcaccttt gaagatgaaa aaggtggtaa gcacaccgtg acgctggaga
      361 aaggggataa cggctggaca tccagtgatc cgacgctgat cccggacagc actggcgata
      421 aagcgaccat tccggcagat aacgtgaagg ataacagtga agttaccggg gttgccaaag
      481 atccgagcgg taatgaaagt gacccgtcaa ccgtgacgtc aaaaactgat ggtgtggcag
      541 atgccccggt tctgagcatt cctgaagtga ctgacggtta tgccaatgct gatgagctga
      601 aagacggttt gcaggcagag gtcacgttgc cggcaggcac ggcagaaggt gcagttatta
      661 cacttaccgt gacccgtccg gacaaaacca cggagaacgt gacacatacc gtgactaaag
      721 atgaagtggc tgccggtaaa gtatccatgg atattccgaa ggatgcggtg attgacgggc
      781 agaacagcgt cagtgtcact ctgactcagg gcagtaaccc ggcgaaaccc gggaatgtgg
      841 ttgattttgc tgccgatacc cagatcccgg gggataccga tggtgatggt gcaacagatg
      901 caacaccggt agttgccatt ccggaagcgg cagatggtgt gaatgccgaa gagctgaagg
      961 atggtgtaca gaccgaagtc acggtaccga aaggcagcgc tgccg
//
