LOCUS       NZ_CP070141             1377 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1281 plasmid unnamed9.
ACCESSION   NZ_CP070141
VERSION     NZ_CP070141.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357423
            Assembly: GCF_016904495.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1377)
  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  JOURNAL   Unpublished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 1377)
  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                   :: 973.38x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:16:42
            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)                     :: 5,536
            CDSs (total)                      :: 5,406
            Genes (coding)                    :: 5,156
            CDSs (with protein)               :: 5,156
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 250
            CDSs (without protein)            :: 250
            Pseudo Genes (ambiguous residues) :: 0 of 250
            Pseudo Genes (frameshifted)       :: 97 of 250
            Pseudo Genes (incomplete)         :: 168 of 250
            Pseudo Genes (internal stop)      :: 38 of 250
            Pseudo Genes (multiple problems)  :: 49 of 250
            Pseudo Genes (short protein)      :: 4 of 250
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070141.1.
            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..1377
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1281"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1281"
                     /db_xref="taxon:562"
                     /plasmid="unnamed9"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(<1..257)
                     /locus_tag="I6K11_RS27335"
                     /old_locus_tag="I6K11_27380"
     CDS             complement(<1..257)
                     /locus_tag="I6K11_RS27335"
                     /old_locus_tag="I6K11_27380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_050490207.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRT"
                     /name="hypothetical protein"
     gene            complement(261..1226)
                     /locus_tag="I6K11_RS27340"
                     /old_locus_tag="I6K11_27385"
     CDS             complement(261..1226)
                     /locus_tag="I6K11_RS27340"
                     /old_locus_tag="I6K11_27385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     Typing          complement(602..833)
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 gttcttaaaa atccaaactt gataccgttt aaatctattt tcacaaaaag agtttttacc
       61 ctctcgtttg ttttctgaat atataaaatt aattcatcct caaaaccttc gtgcggatga
      121 aaaccaaatg tgccaaaact taatccatca ataagcaaaa taaggttttt aaacctgtca
      181 ggaatcaccg cttcacttct taaaaaaaat aaaccaatag tcttatttcc attcaggtat
      241 tcaatattaa tattcatacg ttaatccgat ttatccttct caggggcgcg tttgtaacgc
      301 cgtttacctg aatcccagac aaacgccgtc cgcttcccgt catcagtgcc atcccctaca
      361 tcgtcggcaa tgacaagatc ctcattggtt tctcgatcca actggaggac gttttttagc
      421 gccccaccgg tcgagataaa acggcgcttg tgaagctgcc gcgtcagctc aagaaaccac
      481 tcaggatcgt ttgccatatc ttccggttta acggagtatt tcagcgtttc agcaaccgcg
      541 ctttgcagtt gctcggcaac gttggccaca acctcacctg tcttagtttt tactgcccga
      601 atatcgatat tcggctcata gttcacccgc aagcaatcgc gccagagttc tacccaacgt
      661 tcgtgcttaa cgtagttctt ccctttaaac caagaaggtt gcaccatcag cagacagtga
      721 aaatgcggat gtgcgctgcc atccttacct cgcgtcacct ccgtagccct gatccacccc
      781 tgaacaggtg atagctcctt tcgcttttcc attcgcttaa acgccgcatt cattgctgta
      841 aggactgttc caagttcacc tatctcgcag ttcctgacag ttaacgtcag aaacaaccat
      901 cgggaagacg ggtaatccac aacgattttc ggtagagcct gataaaaacg ggcttgccac
      961 atgagggttc ttctccactg gcagacaggg caatgacgga cacggcaaaa ttgcgcacta
     1021 cgaagccgta ggcgcgtttc tccggtttcc atgatggtag accaaccaaa acgtaacaaa
     1081 ccgctacagg aggccatacg gagtgcatag cgctcgaatt cagcagcagt ctggtagata
     1141 cccccgacag aatcggtaag cgtgcgctgg gtatcccaaa ctgcatcacg ggggctgtag
     1201 tccgaaagga atttatcttc tgacattaag cctgctccga tctgggcagg ctgtgatttg
     1261 atgtggtata ttcatcacgt acctgtgcat tgcgagccag tacatgtcac cagagtttgc
     1321 cgctgaggtg acacattcga aatgttgggg agtgttgacg cactccccaa cgccgat
//
