LOCUS       NZ_CP070006             1734 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1300 plasmid unnamed10.
ACCESSION   NZ_CP070006
VERSION     NZ_CP070006.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357442
            Assembly: GCF_016903915.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1734)
  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  JOURNAL   Unpublished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 1734)
  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                   :: 1255.12x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:03:37
            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)                     :: 5,439
            CDSs (total)                      :: 5,322
            Genes (coding)                    :: 5,075
            CDSs (with protein)               :: 5,075
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 247
            CDSs (without protein)            :: 247
            Pseudo Genes (ambiguous residues) :: 0 of 247
            Pseudo Genes (frameshifted)       :: 94 of 247
            Pseudo Genes (incomplete)         :: 157 of 247
            Pseudo Genes (internal stop)      :: 46 of 247
            Pseudo Genes (multiple problems)  :: 48 of 247
            Pseudo Genes (short protein)      :: 4 of 247
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070006.1.
            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..1734
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1300"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1300"
                     /db_xref="taxon:562"
                     /plasmid="unnamed10"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(246..674)
                     /locus_tag="I6K30_RS26860"
                     /old_locus_tag="I6K30_26865"
     CDS             complement(246..674)
                     /locus_tag="I6K30_RS26860"
                     /old_locus_tag="I6K30_26865"
                     /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"
     gene            832..1002
                     /locus_tag="I6K30_RS26865"
                     /old_locus_tag="I6K30_26870"
     CDS             832..1002
                     /locus_tag="I6K30_RS26865"
                     /old_locus_tag="I6K30_26870"
                     /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            966..1394
                     /locus_tag="I6K30_RS26870"
                     /old_locus_tag="I6K30_26875"
     CDS             966..1394
                     /locus_tag="I6K30_RS26870"
                     /old_locus_tag="I6K30_26875"
                     /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(1610..>1734)
                     /locus_tag="I6K30_RS27345"
     CDS             complement(1610..>1734)
                     /locus_tag="I6K30_RS27345"
                     /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_238067946.1"
                     /translation="PPVQPDRCALSGNYRLESNPVRHDLTPLATATGKQDVREM"
                     /name="replication initiation protein"
ORIGIN
        1 ctctttttgc ggtgtctgcg tcagaatcgc gttcagcgcg tttcagtggt gcgtacaatt
       61 aagggattat ggtaaatata tgagctatgc gataacttta actgtgaagc gatgaaccca
      121 ttacaggcaa agccaattac tcctgacagt ggtttagcca gaagcagggc taccaagacc
      181 aatgcaataa gtaatatatc gttttgctat cgtgcatcgc tcgcgctcag ttccattgtg
      241 cttttttaag ctgtcgtttt tcttacggta tataccggtt ttttatggcg tggtttctta
      301 acttgttcag ctactgatgg acccattgta tctaggtagt caactagctt tgttagatca
      361 taaatattgc gaccaccata tcggcgatca ctcttcgatg ttggtttctt gtccaagaga
      421 ttagcttttt caagatcatt gatagctctc tgaacagtcc gtacagaaac ccccatacgt
      481 atggctagac tttccattga cggatgcggc cactcttgca aactccacca gtgaacgatc
      541 aggttaagta gtgtgttaaa ggccactgaa gttagctttt tctcgttttg tataaaaaac
      601 aatacggtag gcactgctgt ccagccaaga gacaaaccgc cagctttcca tttattctta
      661 acggagtaag tcattgattt tcctaagccc caaaatattt aaagtatata ttatatgata
      721 tattcatatg aatagggtga cactggcgcc attattgtgc aaccaaaaaa gactactctg
      781 aaaacgagga aaagattttt tcctgcctga attagatacg gagttagcga tatgaaaacc
      841 gaacaacgtc atgatcttgt taaagatatt gaggtttttg gcgtatcctt gtctctgttg
      901 atttccagag cgaatgagaa gtctgttaca atgccatctg gtctaagtcg ggagcagaga
      961 agagcatggg cagcggagca ggcgcgcaaa atccacaatt gaatattgtc tcattctctg
     1021 agaccttcaa cctttattac acatccagat attctgcaaa aacactcgat aaaatcgatg
     1081 atttcattga gcattttgaa aaatacaatc tctttggcga tcctttaaaa ggatatccag
     1141 cttggactgg caaagtatcg ccatcgtgga aagtgcctga tcattacgaa aacaaagaag
     1201 ctattgagaa gtatgctaga gctaacaaat tatggcatgc tcatttaggc gatccggttt
     1261 ttaaagatac gtttcatggg aaatacaagg tttctgactg ggttattcat ttccagcggc
     1321 tgacaccgaa ccatataaag cttttagagc ttggatacca tgacccaatg aagctacctc
     1381 aaaactttga atgatcgagc ggcaggctaa atgaaatctt gagattcatt cagtctcgtc
     1441 gtaatctcac tattgtaaaa acgaaaaaac caccctggca ggtggttttt cgaaggttag
     1501 ttaatcctgg cagattctct aaccgtggta acagtcttgt gcgagacatg tcaccaaata
     1561 ctgtcctttc agtgtagcct cagttaggcc gccacttcaa gaactctcgt tacatctctc
     1621 gcacatcctg cttaccagtg gccgttgcca gtggcgttaa gtcgtgtctt accgggttgg
     1681 actcaagacg atagttaccg gataaggcgc agcggtcggg ctgaacgggg ggtt
//
