LOCUS       NZ_CP070123             1206 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1298 plasmid unnamed8.
ACCESSION   NZ_CP070123
VERSION     NZ_CP070123.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357440
            Assembly: GCF_016904455.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1206)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1206)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SMRT v. 8.0.0, HGAP v. 4
            Genome Coverage                   :: 963.3x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:37:30
            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)                     :: 5,299
            CDSs (total)                      :: 5,180
            Genes (coding)                    :: 4,969
            CDSs (with protein)               :: 4,969
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 211
            CDSs (without protein)            :: 211
            Pseudo Genes (ambiguous residues) :: 0 of 211
            Pseudo Genes (frameshifted)       :: 78 of 211
            Pseudo Genes (incomplete)         :: 128 of 211
            Pseudo Genes (internal stop)      :: 48 of 211
            Pseudo Genes (multiple problems)  :: 40 of 211
            Pseudo Genes (short protein)      :: 4 of 211
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070123.1.
            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/
FEATURES             Location/Qualifiers
     source          1..1206
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1298"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1298"
                     /db_xref="taxon:562"
                     /plasmid="unnamed8"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            <1..300
                     /locus_tag="I6K28_RS26210"
                     /old_locus_tag="I6K28_26145"
                     /pseudo=""
     CDS             <1..300
                     /locus_tag="I6K28_RS26210"
                     /old_locus_tag="I6K28_26145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310049.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            297..860
                     /locus_tag="I6K28_RS26215"
                     /old_locus_tag="I6K28_26150"
     CDS             297..860
                     /locus_tag="I6K28_RS26215"
                     /old_locus_tag="I6K28_26150"
                     /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_063148492.1"
                     /translation="MNDMKAVRHRYKQRYDFAASEVVGAFDELKSLDWSLEIASLSDVE
                     MSKRWIGAVDPNGVARLPPNGGWDWVKLYNGYLKNPSAFVCAIKSEGKLCALIGGGVSD
                     SKVVTKLHYLESAPYDTALSGYALDISVTYVVTVANAMGSEYTAIYEPNSKVREIAIND
                     YGFSEDNLFGTSKDFALYLPMSRI"
                     /name="hypothetical protein"
     gene            complement(870..1022)
                     /locus_tag="I6K28_RS26220"
                     /old_locus_tag="I6K28_26155"
     CDS             complement(870..1022)
                     /locus_tag="I6K28_RS26220"
                     /old_locus_tag="I6K28_26155"
                     /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_001341064.1"
                     /translation="MLAHAVELKKATEPCSSGTAGAFRQRVKARRAEQGRSNQQPEKLY
                     GVLVG"
                     /name="hypothetical protein"
ORIGIN
        1 ttatggtgtc gagtttttga cgagggattc gtcgaaatta gggataaaga tgctctggca
       61 tttgagtcag ggtttagtgg gcagcgagcg gtgactactt ggctaggaag aatgaaaaag
      121 ctacgggagc tgggactgat atcaacgaag cctggtactt ctggcgagtt tcattatgta
      181 atcatgttga atccacttta cgtaattaaa aagtcatatg aatcaaatgg atgggcaagg
      241 gatgagcgtt acaacgctct attttctagg atgcaggaag tgggggctga gtgggaatga
      301 acgacatgaa agctgttcgt caccgatata agcagagata tgattttgct gcgtcagaag
      361 tagtgggggc gtttgatgaa cttaaaagtt tggattggag tttagaaatc gcatctttaa
      421 gtgacgtgga aatgtcaaag agatggattg gggctgttga tcctaacggt gttgcaagac
      481 taccacctaa cggtggatgg gactgggtta agctctataa cggctatttg aagaacccta
      541 gcgcattcgt ctgtgccatt aaatcagaag gcaagctatg cgctctgatt ggtggcgggg
      601 tttctgatag taaagtggta actaagctgc attaccttga atcagcccct tatgacacgg
      661 ctctttcagg atatgcactg gatatttctg ttacgtatgt tgttactgtc gcgaatgcga
      721 tgggaagcga atacacagcc atctatgagc caaatagcaa agtcagagag atagctataa
      781 atgattatgg atttagcgag gacaacttgt ttgggacaag taaagatttc gctctgtatc
      841 taccaatgag ccggatttaa ccggctcatt tatcctacca gtacgccgta gagtttttct
      901 ggctgttggt ttgatcggcc ttgctctgct cgtcttgctt tcacgcgctg gcgaaatgct
      961 ccggctgtgc cagaagagca tggttccgtc gcttttttaa gttcgaccgc gtgagctaac
     1021 atattatttc cgttttttcg tgagttagta caaagcatat gaggtgacgg atacgtcaac
     1081 ttcatagtaa ctgtactgta ttgtagaaga gatgcgcaag tcgcagaatt aatgcgaccc
     1141 ttcattgacg aggcgaagag taaacgcgta tcttctttga aaacgaaaaa accacccggc
     1201 aaggtg
//
