LOCUS       NZ_CP070131             1739 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1292 plasmid unnamed7.
ACCESSION   NZ_CP070131
VERSION     NZ_CP070131.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357434
            Assembly: GCF_016904475.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1739)
  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  JOURNAL   Unpublished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 1739)
  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                   :: 1353.32x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:30:25
            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)                     :: 5,003
            CDSs (total)                      :: 4,888
            Genes (coding)                    :: 4,705
            CDSs (with protein)               :: 4,705
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 183
            CDSs (without protein)            :: 183
            Pseudo Genes (ambiguous residues) :: 0 of 183
            Pseudo Genes (frameshifted)       :: 71 of 183
            Pseudo Genes (incomplete)         :: 119 of 183
            Pseudo Genes (internal stop)      :: 40 of 183
            Pseudo Genes (multiple problems)  :: 44 of 183
            Pseudo Genes (short protein)      :: 4 of 183
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070131.1.
            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..1739
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1292"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1292"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            <1..113
                     /locus_tag="I6K22_RS25120"
     CDS             <1..113
                     /locus_tag="I6K22_RS25120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005019281.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=3
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_227630567.1"
                     /translation="PDRCALSGNYRLESNPVRHDLTPLATATGKQDVREM"
                     /name="replication initiation protein"
     gene            complement(329..757)
                     /locus_tag="I6K22_RS24740"
                     /old_locus_tag="I6K22_24740"
     CDS             complement(329..757)
                     /locus_tag="I6K22_RS24740"
                     /old_locus_tag="I6K22_24740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(721..891)
                     /locus_tag="I6K22_RS24745"
                     /old_locus_tag="I6K22_24745"
     CDS             complement(721..891)
                     /locus_tag="I6K22_RS24745"
                     /old_locus_tag="I6K22_24745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            1049..1477
                     /locus_tag="I6K22_RS24750"
                     /old_locus_tag="I6K22_24750"
     CDS             1049..1477
                     /locus_tag="I6K22_RS24750"
                     /old_locus_tag="I6K22_24750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
ORIGIN
        1 agcccgaccg ctgcgcctta tccggtaact atcgtcttga gtccaacccg gtaagacacg
       61 acttaacgcc actggcaacg gccactggta agcaggatgt gcgagagatg taacgagagt
      121 tcttgaagtg gcggcctaac tgaggctaca ctgaaaggac agtatttggt gacatgtctc
      181 gcacaagact gttaccacgg ttagagaatc tgccaggatt aactaacctt cgaaaaacca
      241 cctgccaggg tggttttttc gtttttacaa tagtgagatt acgacgagac tgaatgaatc
      301 tcaagatttc atttagcctg ccgctcgatc attcaaagtt ttgaggtagc ttcattgggt
      361 catggtatcc aagctctaaa agctttatat ggttcggtgt cagccgctgg aaatgaataa
      421 cccagtcaga aaccttgtat ttcccatgaa acgtatcttt aaaaaccgga tcgcctaaat
      481 gagcatgcca taatttgtta gctctagcat acttctcaat agcttctttg ttttcgtaat
      541 gatcaggcac tttccacgat ggcgatactt tgccagtcca agctggatat ccttttaaag
      601 gatcgccaaa gagattgtat ttttcaaaat gctcaatgaa atcatcgatt ttatcgagtg
      661 tttttgcaga atatctggat gtgtaataaa ggttgaaggt ctcagagaat gagacaatat
      721 tcaattgtgg attttgcgcg cctgctccgc tgcccatgct cttctctgct cccgacttag
      781 accagatggc attgtaacag acttctcatt cgctctggaa atcaacagag acaaggatac
      841 gccaaaaacc tcaatatctt taacaagatc atgacgttgt tcggttttca tatcgctaac
      901 tccgtatcta attcaggcag gaaaaaatct tttcctcgtt ttcagagtag tcttttttgg
      961 ttgcacaata atggcgccag tgtcacccta ttcatatgaa tataccatat aatatatact
     1021 ttaaatattt tggggcttag gaaaatcaat gacttactcc gttaagaata aatggaaagc
     1081 tggcggtttg tctcttggct ggacagcagt gcctaccgta ttgtttttta tacaaaacga
     1141 gaaaaagcta acttcagtgg cctttaacac actacttaac ctgatcgttc actggtggag
     1201 tttgcaagag tggccgcatc cgtcaatgga aagtctagcc atacgtatgg gggtttctgt
     1261 acggactgtt cagagagcta tcaatgatct tgaaaaagct aatctcttgg acaagaaacc
     1321 aacatcgaag agtgatcgcc gatatggtgg tcgcaatatt tatgatctaa caaagctagt
     1381 tgactaccta gatacaatgg gtccatcagt agctgaacaa gttaagaaac cacgccataa
     1441 aaaaccggta tataccgtaa gaaaaacgac agcttaaaaa agcacaatgg aactgagcgc
     1501 gagcgatgca cgatagcaaa acgatatatt acttattgca ttggtcttgg tagccctgct
     1561 tctggctaaa ccactgtcag gagtaattgg ctttgcctgt aatgggttca tcgcttcaca
     1621 gttaaagtta tcgcatagct catatattta ccataatccc ttaattgtac gcaccactga
     1681 aacgcgctga acgcgattct gacgcagaca ccgcaaaaag agatgtttta ccccgggaa
//
