LOCUS       NZ_CP041003             1549 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain FDAARGOS_772 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP041003
VERSION     NZ_CP041003.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11056487
            Assembly: GCF_006364695.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1549)
  AUTHORS   Jackson,S., Kralj,J., Tallon,L., Sadzewicz,L., 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  JOURNAL   Unpublished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 1549)
  AUTHORS   Jackson,S., Kralj,J., Tallon,L., Sadzewicz,L., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JUN-2019) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Spring, MD 20993-0002, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: canu v. 1.4, SPAdes v. 3.11.1
            Genome Coverage                   :: 994.93x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_006364695.1-RS_2024_06_20
            Annotation Date                   :: 06/20/2024 02:37:46
            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)                     :: 5,342
            CDSs (total)                      :: 5,213
            Genes (coding)                    :: 4,917
            CDSs (with protein)               :: 4,917
            Genes (RNA)                       :: 129
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 98
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 296
            CDSs (without protein)            :: 296
            Pseudo Genes (ambiguous residues) :: 0 of 296
            Pseudo Genes (frameshifted)       :: 110 of 296
            Pseudo Genes (incomplete)         :: 200 of 296
            Pseudo Genes (internal stop)      :: 58 of 296
            Pseudo Genes (multiple problems)  :: 64 of 296
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041003.1.
            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..1549
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_772"
                     /isolation_source="ATCC Isolate"
                     /host="NIST Mixed Microbial RM strain"
                     /culture_collection="ATCC:BAA 2309"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: VA"
                     /collected_by="NIST<ATCC"
                     /note="NIST Mixed Microbial RM strain"
     gene            join(1315..1549,1..242)
                     /locus_tag="FIU16_RS27135"
                     /old_locus_tag="FIU16_27135"
     CDS             join(1315..1549,1..242)
                     /locus_tag="FIU16_RS27135"
                     /old_locus_tag="FIU16_27135"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(687..812)
                     /locus_tag="FIU16_RS27145"
                     /old_locus_tag="FIU16_27145"
     CDS             complement(687..812)
                     /locus_tag="FIU16_RS27145"
                     /old_locus_tag="FIU16_27145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001431667.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001431667.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     Typing          834..932
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(1128..1236)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(474..734)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 ttctagctga aaaacttgga gttagcagaa gcacaattat tcggtggctc aattacttag
       61 aatcaaaaaa tgcattagtt agaatccccg ttgctggtaa ggtttgtgcg tatgccctcg
      121 atccacatga agtctggaag ggatacaaca ctacgaaaaa ccatgcagcg tttgtcacta
      181 aaacactggt caacaaagac ggtgatattc agcgccgaat catggccatg ttttcaaatt
      241 gagctagcgg caggcggaca atcaggggct acgtgttaac gttctgacca tgattgtcta
      301 tcctgcattg ctcttttgcc gcctcaaaat cctttgcgtg tttttgctcc ccgttctcca
      361 aaaaaaaccg agccgccacg gttccggccg cgccttgagc gctaccggaa accgtctggg
      421 gagaacccca gacccccatc gctgcaacac cgacggtcta cgaccaccta ccaaccgcat
      481 ggctgcctgt tccgtgcaaa tgggctttgc agggggctgg cgcggttcct ggcgacctga
      541 aagcccctgg ttaggggtat cggcgcgctt gacctcctga gagcctctgt aagcgttttt
      601 cgcgccttcc atgccctggc gggcatctaa aacccgtttc gtgcgtctga gagcttttga
      661 gcgcgtttga ggggctatct ggcgactcat ccccaaaaga acaacaccgg gatcaccgac
      721 aacatgcgag aggtgatccc gctcgccgca agtcgatgac cgagcgtagc gagcgaatcg
      781 acgaggaagc ggaagagaac tggaagccac attgagcact tacgcactga tgcggggtgt
      841 cggggtgaag ccctgaccaa gtggtaatcg tatcggcgtg catgcgcggt tatacgatta
      901 cacatcctgt cccgatttct gaggcgtttt aacggtgaac ggacggcaaa aaaacgatgg
      961 agctgttgaa cgtgaaaacc acgaaatctg gcaaaaatca cggctggcga ggcttgcata
     1021 ggagtaagcc agtatacact ccgctatcgc tacgtgactg ggtcagggct tcgccccgac
     1081 acccccaaag ggcgttgcgt tgcacgcaac acccttgcct agaatagatc ttttacgccg
     1141 atttgtaagt ggttgttttt ttagtgtgtt ttttatttac ctgtcgcatc caggatgaca
     1201 caacgttgtc gcatcctgga tgcgacaaca cgcaacaagg tgttgcatag atgtgtcatg
     1261 atggcttaga tttgaaccaa cgttagtgca tgggattttc agagggaaaa aatcatgttt
     1321 attgattcag aaaaacgact gaaacaactt tcagatgagg caaagaaaaa caccgaggat
     1381 ctcgaagaag caaagaaaaa ttcaaggttt acacaggtat ccccaaaagg ttgggaacgt
     1441 gttcgagagc tgctgaagga tagccaaggc atatcagcac tgaagctgta ctcattttta
     1501 gcggagcata tcgatcctac gtgtggcgct gtcgttgcgg atcagcaat
//
