LOCUS       NZ_CP070114             5166 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1301 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP070114
VERSION     NZ_CP070114.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357443
            Assembly: GCF_016904435.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5166)
  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  JOURNAL   Unpublished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 5166)
  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                   :: 1375.42x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:21:30
            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)                     :: 5,089
            CDSs (total)                      :: 4,968
            Genes (coding)                    :: 4,780
            CDSs (with protein)               :: 4,780
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 188
            CDSs (without protein)            :: 188
            Pseudo Genes (ambiguous residues) :: 0 of 188
            Pseudo Genes (frameshifted)       :: 67 of 188
            Pseudo Genes (incomplete)         :: 124 of 188
            Pseudo Genes (internal stop)      :: 42 of 188
            Pseudo Genes (multiple problems)  :: 43 of 188
            Pseudo Genes (short protein)      :: 4 of 188
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070114.1.
            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..5166
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1301"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1301"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(4826..5166,1..58))
                     /locus_tag="I6K31_RS25180"
                     /old_locus_tag="I6K31_25180"
     CDS             complement(join(4826..5166,1..58))
                     /locus_tag="I6K31_RS25180"
                     /old_locus_tag="I6K31_25180"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            235..1161
                     /locus_tag="I6K31_RS25185"
                     /old_locus_tag="I6K31_25185"
     CDS             235..1161
                     /locus_tag="I6K31_RS25185"
                     /old_locus_tag="I6K31_25185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1164..1697
                     /locus_tag="I6K31_RS25190"
                     /old_locus_tag="I6K31_25190"
     CDS             1164..1697
                     /locus_tag="I6K31_RS25190"
                     /old_locus_tag="I6K31_25190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(1763..1972)
                     /locus_tag="I6K31_RS25195"
                     /old_locus_tag="I6K31_25195"
     CDS             complement(1763..1972)
                     /locus_tag="I6K31_RS25195"
                     /old_locus_tag="I6K31_25195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     gene            3708..4622
                     /locus_tag="I6K31_RS25200"
                     /old_locus_tag="I6K31_25200"
     CDS             3708..4622
                     /locus_tag="I6K31_RS25200"
                     /old_locus_tag="I6K31_25200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     Typing          3709..4483
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          236..1158
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgagcttcct gatgaatccg atccgtttct tcagccattc gatgttgctg atgcgcatgt
       61 tcgtgatgct ccctggtgtt tttttgcggt gtgttgtggt cgtgcagtat atcgcttgcg
      121 gtcggcgggt gcagggggta tcttccgtgc taattcgtaa aattagaagg aagcgcactt
      181 atatgtttct ctccttcgtc gagaaacagt gcgctcctgc agagggctga aaccgtggca
      241 acctatcacc tcagcgttaa atttggtggc aaggggcagg ctgcaaacca cgccgattac
      301 atcgagcgca aagagaaata ccgcgaccgt caggatttgg aatattccgc acacggaaac
      361 atgccggaat gggccaggga taatccttcc catttctggc aggcggctga ccagtttgaa
      421 cgtgcgaacg gttcgaccta tagggaactt gaaattgcat taccccgtga actgacaccg
      481 gaacagcgcc ttgaactggt gcaggatttt gtacgtcagg aagctggcga acggcacgcc
      541 tggagttttg ccattcacaa tccgaaagcg agcattgacg gcggcgaaca gcctcatgcg
      601 catatcatga tgagtcagcg tgtgaatgat ggcattgaac gtacaccgga acagtatttc
      661 cggcgctata acgccaggta tcccgagcgg ggaggtgcga aaaaggattc cggaagcctg
      721 actctcactc agcaaaaaga gcagttgcgg gaattgcgaa aacgctggga ggtgaagcac
      781 aacgaacata tgagaaagca tggctttgaa aggggcttca ttgactgccg gacgctgaaa
      841 gaacagggca ttgaacgacg tcccgaagtg catctgggtt ttgaagctgc cggacggctt
      901 gatgatgccc agcgtcatga catcatgcaa aaacggtctg aaccggacta ttcccgccat
      961 cttgaacagg cgcgaacggt cgggcatgac atcagggaat ggctggacac tccggttaag
     1021 caacatgaac tggtcagaag gctgcaacat gatgttgcgc gggagcatgg ctttgacatg
     1081 agagacagag tgagcagaca gaaccgaact gcacctgaac gggttaaatc accgtcacgt
     1141 ggattttcta tgggattctg aacatggcca gcacagaaga aaaattactc acgctcctgt
     1201 tatcggtgga gcatctgcaa cataccgcaa tggagcaaca gaaagctgtt gctgattctc
     1261 tggctgtggc aagggaaact cttcgcggat atcgggatat ttctgacggt gtggcaaaac
     1321 aggtcaggga tgaagtcaga aatgaggtgc agaagctgga cgtggcagga ctgataggtg
     1381 agcgcatcag ccaggatttt cagcggctgg aagagtcagt cgcaaacatg aaggcaaacg
     1441 cggatgccct gaacagggat attgcgacaa ttcacagcaa tatcgtgcag gaatacaaca
     1501 cccttaaagg gtatagctgg aaatggctgg gtggggtgtc agtggctttt ctggttatgt
     1561 tctgtgtgct cggatgggga atgaaaacaa tactcgacag gaactacaac gccacagcgg
     1621 cggtgtatca gaaagttgtg acactggaag ataaactggt ggagaaacct gtcacgggga
     1681 agagccggaa aaactgacgc gcttcgcttg tccaacgcct cacgacccgc gaaaggattt
     1741 cgcgaaccgt tcaccgtttt tttcaatatg attctgtctg ctttggtcga taaagcagac
     1801 gatagtattc cagccttcgt atatataacg gtacgtgctc atcagtaaga gctggcggta
     1861 ttgtgttatc agggggaagt tttttcagat actcacgaaa tgcctggctt gatgccataa
     1921 aatctacagt agcatcgata atatgtgggg tgttttcacc taattttgcc atgatgataa
     1981 tccttatatt atcacggttt gtgaatgata gggtgtcact attatttatg cgttagtgaa
     2041 ccagaaaaaa tcccccgttg gcataggggg atatgtaagg agaaataact tcgcaggtgt
     2101 tcttgtttgt ataacgtgaa aagactgcac gcaacttaat aagtctgccg tacttacttt
     2161 cagttttcaa cataaggttt ataacaatgt atggaatgga agtgagcttt aaggtttcag
     2221 ctctaaaaaa taaaatattt attagttggc tggttgttgt tcttgttctg tatgtatata
     2281 aacactatcg acatattatg accgggaaca ttccttaccc cctctgcgct cgcagaggtt
     2341 ttttttgtca ttaattaata atgaactgaa atgcagttcc gatacctcca tttgcacatt
     2401 atccctgaca tatggtaccg gaaccgcatt aattttatgt tataagagtt tatttttaat
     2461 gtccagatgg tttaatagta tttatatgta attagctgta tggatagtac tggttttatt
     2521 gtataacttg tcgttttttt tattgttttt gtgtggtgtg ctaatcttta agttataaaa
     2581 aaaccccttg gaatacaggg gcaaaagtaa ggaaaacaaa tggatgctca gtttgtgtga
     2641 cactttaaac taatggaact atagagtgga ggttgttaca gtcgctttta taaaacagca
     2701 accagttttt ttcaatagtc tgatgatggt tgtgacagtt ttgtgatatt gttcaaaatg
     2761 tttcttgttg aatgtttgtt ttttggtcta ttggtgtctg gttttatttt ttctgctatt
     2821 acatatcaag aaatgtgatt ggtgtagcaa gagtggaatg cgatgtggat aaactaattg
     2881 gttgtcgaat ctaatttact tagaaaacta cacttgtttt tgtgtatgaa tttagtgaat
     2941 ttgtctgtct atgtgttttc gtgcatttat aaatccttcg tcaggatctt aaatttagtg
     3001 ttgaatatgt agggcctgta cggtaattat tatttagcgt agctacttca tcgttgttcg
     3061 aacacaacca acaacctgta attgttgttt ctcttggttc cccacttttg tggggttttt
     3121 tatctcttcc gtgcatcgta aagcgcggac tccttctgga aaggttgttt tagggcatca
     3181 ctgaggcatt ttttgcgttt gtgaatattg agcatccgat aactaaaata tttcccatag
     3241 actctgattc ttgccaccga ccccaggtcg gttttttttt gtcctggcga gatgtgaagt
     3301 ttggaaacag gaaaccccgt cagagcgcca cgcaccaggg gagaaaactt gtcgttttga
     3361 gccgttcggt gttcagaacg cacgaaaccg atcgcacatc gctttcgtgc atagttatgc
     3421 aacgccctga aaacgattct gacgcgtttt tctggtttgg cctggtgttt tcttgtcttt
     3481 ttgcgttttt tgcgccagaa agcgactgag ggcgttttaa ggggggcgta caacgggagt
     3541 tatggtaaat ggatcgggtt ttcgggaagg ttcgacagga tttgccgttg ggtgtagtgt
     3601 aagcgactga aaaacaaacg cccctgaaat catgtccaga tccggcaaga ttcaacatga
     3661 aatacagagg gcgtgtaggt cgcataaccc ggagagaatc gtaacacatg agcgccgcgc
     3721 ttcaatactt cgacgaaaat ttaccccatc gtccctatca cacggatgat ctcgcttttg
     3781 gtcttcgcat ctccggcaaa gggcgtgcgc ttcttgcgcg gtacatacag cagaaccagc
     3841 ctcatgcgca gttctggctg gtttttgacg ttgaccgcga gggggctgcg attgactgga
     3901 gcgaccggaa cgctcccgcg ccgaacatca ccgttaaaaa tcctgtgaac ggacacgctc
     3961 acctgctcta cgcactcaac atcgccgtga gaaccgcgcc tgatgcctcg gttaaggcgc
     4021 tgaaatatgc cgcagcggtt gaacgttcgc tgtgtgagaa actttgtgcg gatgtgaact
     4081 acagcggcct gatttgcaaa aatccgttcc acctggaatg gctggtgatg gagtggcgcg
     4141 aggaagccta taccctcgat gaactggctg attatctcga tttgagcgcc tcagagcgtc
     4201 gtagcatcga taaacattac gggatggggc gaaactgcca cctgttcgaa atgacgcgca
     4261 aatgggctta cagggcgatt cgtcagggct ggccagcgtt ctcacagtgg cttgaagcgg
     4321 tgatccagcg tgtcgaaatg tacaatgcat cgcttcccgt tccgctttca ctggctgaat
     4381 gtcgggctat tggcaagagc attgcgaaat acacgcacag gaacttcacg ccggaaactt
     4441 tcgcacagta tgtggctgat acgcacacgc cagaaattca ggctgcacgc ggtcgcaagg
     4501 gcggttctaa gtctaagcgc agcacagtag ctacatctgc acgcacgctg aaaccgtggg
     4561 aggcattagg gatcagtcgc gcctggtatt accaactgaa aaaacgaggt ctcgtagagt
     4621 agaccaaata agcctatatc agataacagc gcctttctgg cgtctttttg agcagcaggt
     4681 tttttgccgt ttttccccgt tcagccctgc aatggcgcgg ctttccgcgt gattgtggtg
     4741 gtagtgctcg ccgcagtctc atgaccgagc gtagcgagcg aatgagcgag gaagcaccag
     4801 ggaatcggaa cacggatgga ggcacttacg cgtctgggtt tggggatgtc tccagatcgt
     4861 acttaagttc cttaagtgct tgtaatatcc tgtctttttt atagcatagc tcgcctgttt
     4921 ttgtgtctac cagtcctgct tcgatcagta gcccagccgc gagaaagagc cggtgattgc
     4981 gttcccgtcg ttgttttttt ccctcgattc gtttttggac cgcctgtttt cgttcgctct
     5041 cctgtgcctg taagtcgttt ttttccgctg ttgccagtac gtggagaagt ttgcgttcct
     5101 gttctgtgag tccggcttcg ttgtcgatca ggtcaataat ctgtctctgt cgtgcggtct
     5161 gttctc
//
