LOCUS       NZ_CP070096             5164 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1370 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP070096
VERSION     NZ_CP070096.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357512
            Assembly: GCF_016904335.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5164)
  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  JOURNAL   Unpublished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 5164)
  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                   :: 1046.79x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:28:47
            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)                     :: 5,174
            CDSs (total)                      :: 5,056
            Genes (coding)                    :: 4,837
            CDSs (with protein)               :: 4,837
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 219
            CDSs (without protein)            :: 219
            Pseudo Genes (ambiguous residues) :: 0 of 219
            Pseudo Genes (frameshifted)       :: 78 of 219
            Pseudo Genes (incomplete)         :: 148 of 219
            Pseudo Genes (internal stop)      :: 41 of 219
            Pseudo Genes (multiple problems)  :: 45 of 219
            Pseudo Genes (short protein)      :: 4 of 219
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070096.1.
            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..5164
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1370"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1370"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            1398..1607
                     /locus_tag="I6L00_RS00040"
                     /old_locus_tag="I6L00_00040"
     CDS             1398..1607
                     /locus_tag="I6L00_RS00040"
                     /old_locus_tag="I6L00_00040"
                     /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            complement(1673..2206)
                     /locus_tag="I6L00_RS00045"
                     /old_locus_tag="I6L00_00045"
     CDS             complement(1673..2206)
                     /locus_tag="I6L00_RS00045"
                     /old_locus_tag="I6L00_00045"
                     /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(2209..3135)
                     /locus_tag="I6L00_RS00050"
                     /old_locus_tag="I6L00_00050"
     CDS             complement(2209..3135)
                     /locus_tag="I6L00_RS00050"
                     /old_locus_tag="I6L00_00050"
                     /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_025732090.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     FTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            3312..3710
                     /locus_tag="I6L00_RS00055"
                     /old_locus_tag="I6L00_00055"
     CDS             3312..3710
                     /locus_tag="I6L00_RS00055"
                     /old_locus_tag="I6L00_00055"
                     /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            complement(3914..4828)
                     /locus_tag="I6L00_RS00060"
                     /old_locus_tag="I6L00_00060"
     CDS             complement(3914..4828)
                     /locus_tag="I6L00_RS00060"
                     /old_locus_tag="I6L00_00060"
                     /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_001271363.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     Typing          complement(3915..4828)
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.909"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2213..3135)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccgaacggct caaaacgaca agttttctcc cctggtgcgt ggcgctctga cggggtttcc
       61 tgtttccaaa cttcacatct cgccaggaca aaaaaaaacc gacctggggt cggtggcaag
      121 aatcagagtc tatgggaaat attttagtta tcggatgctc aatattcaca aacgcaaaaa
      181 atgcctcagt gatgccctaa aacaaccttt ccagaaggag tccgcgcttt acgatgcacg
      241 gaagagataa aaaaccccac aaaagtgggg aaccaagaga aacaacaatt acaggttgtt
      301 ggttgtgttc gaacaacgat gaagtagcta cgctaaataa taattaccgt acaggcccta
      361 catattcaac actaaattta agatcctgac gaaggattta taaatgcacg aaaacacaca
      421 gacagacaaa ttcactaaat tcatacacaa aaacaagtgt agttttctaa gtaaattaga
      481 ttcgacaacc aattagttta tccacatcgc attccactct tgctacacca atcacatttc
      541 ttgatatgta atagcagaaa aaataaaacc agacaccaat agaccaaaaa acaaacattc
      601 aacaagaaac attttgaaca atatcacaaa actgtcacaa ccatcatcag actattgaaa
      661 aaaactggtt gctgttttat aaaagcgact gtaacaacct ccactctata gttccattag
      721 tttaaagtgt cacacaaact gagcatccat ttgttttcct tacttttgcc cctgtattcc
      781 aaggggtttt tttataactt aaagattagc acaccacaca aaaacaataa aaaaaacgac
      841 aagttataca ataaaaccag tactatccat acagctaatt acatataaat actattaaac
      901 catctggaca ttaaaaataa actcttataa cataaaatta atgcggttcc ggtaccatat
      961 gtcagggata atgtgcaaat ggaggtatcg gaactgcatt tcagttcatt attaattaat
     1021 gacaaaaaaa acctctgcga gcgcagaggg ggtaaggaat gttcccggtc ataatatgtc
     1081 gatagtgttt atatacatac agaacaagaa caacaaccag ccaactaata aatattttat
     1141 tttttagagc tgaaacctta aagctcactt ccattccata cattgttata aaccttatgt
     1201 tgaaaactga aagtaagtac ggcagactta ttaagttgcg tgcagtcttt tcacgttata
     1261 caaacaagaa cacctgcgaa gttatttctc cttacatatc cccctatgcc aacgggggat
     1321 tttttctggt tcactaacgc ataaataata gtgacaccct atcattcaca aaccgtgata
     1381 atataaggat tatcatcatg gcaaaattag gtgaaaacac cccacatatt atcgatgcta
     1441 ctgtagattt tatggcatca agccaggcat ttcgtgagta tctgaaaaaa cttccccctg
     1501 ataacacaat accgccagct cttactgatg agcacgtacc gttatatata cgaaggctgg
     1561 aatactatcg tctgctttat cgaccaaagc agacagaatc atattgaaaa aaacggtgaa
     1621 cggttcgcga aatcctttcg cgggtcgtga ggcgttggac aagcgaagcg cgtcagtttt
     1681 tccggctctt ccccgtgaca ggtttctcca ccagtttatc ttccagtgtc acaactttct
     1741 gatacaccgc cgctgtggcg ttgtagttcc tgtcgagtat tgttttcatt ccccatccga
     1801 gcacacagaa cataaccaga aaagccactg acaccccacc cagccatttc cagctatacc
     1861 ctttaagggt gttgtattcc tgcacgatat tgctgtgaat tgtcgcaata tccctgttca
     1921 gggcatccgc gtttgccttc atgtttgcga ctgactcttc cagccgctga aaatcctggc
     1981 tgatgcgctc acctatcagt cctgccacgt ccagcttctg cacctcattt ctgacttcat
     2041 ccctgacctg ttttgccaca ccgtcagaaa tatcccgata tccgcgaaga gtttcccttg
     2101 ccacagccag agaatcagca acagctttct gttgctccat tgcggtatgt tgcagatgct
     2161 ccaccgataa caggagcgtg agtaattttt cttctgtgct ggccatgttc agaatcccat
     2221 agaaaatcca cgtgacggtg atttaacccg ttcaggtgca gttcggttct gtctgctcac
     2281 tctgtctctc atgtcaaagc catgctcccg cgcaacatca tgttgcagcc ttctgaccag
     2341 ttcatgttgc ttaaccggag tgtccagcca ttccctgatg tcatgcccga ccgttcgcgc
     2401 ctgttcaaga tggcgggaat agtccggttc agaccgtttt tgcatgatgt catgacgctg
     2461 ggcatcatca agccgtccgg cagcttcaaa acccagatgc acttcgggac gtcgttcaat
     2521 gccctgttct ttcagcgtcc ggcagtcaat gaagcccctt tcaaagccat gctttctcat
     2581 atgttcgttg tgcttcacct cccagcgttt tcgcaattcc cgcaactgct ctttttgctg
     2641 agtgaaagtc aggcttccgg aatccttttt cgcacctccc cgctcgggat acctggcgtt
     2701 atagcgccgg aaatactgtt ccggtgtacg ttcaatgcca tcattcacac gctgactcat
     2761 catgatatgc gcatgaggct gttcgccgcc gtcaatgctc gctttcggat tgtgaatggc
     2821 aaaactccag gcgtgccgtt cgccagcttc ctgacgtaca aaatcctgca ccagttcaag
     2881 gcgctgttcc ggtgtcagtt cacggggtaa tgcaatttca agttccctat aggtcgaacc
     2941 gttcgcacgt tcaaactggt cagccgcctg ccagaaatgg gaaggattat ccctggccca
     3001 ttccggcatg tttccgtgtg cggaatattc caaatcctga cggtcgcggt atttctcttt
     3061 gcgctcgatg taatcggcgt ggtttgcagc ctgccccttg ccaccaaatt taacgctgag
     3121 gtgataggtt gccacggttt cagccctctg caggagcgca ctgtttctcg acgaaggaga
     3181 gaaacatata agtgcgcttc cttctaattt tacgaattag cacggaagat accccctgca
     3241 cccgccgacc gcaagcgata tactgcacga ccacaacaca ccgcaaaaaa acaccaggga
     3301 gcatcacgaa catgcgcatc agcaacatcg aatggctgaa gaaacggatc ggattcatca
     3361 ggaagctcgg agaacagacc gcacgacaga gacagattat tgacctgatc gacaacgaag
     3421 ccggactcac agaacaggaa cgcaaacttc tccacgtact ggcaacagcg gaaaaaaacg
     3481 acttacaggc acaggagagc gaacgaaaac aggcggtcca aaaacgaatc gagggaaaaa
     3541 aacaacgacg ggaacgcaat caccggctct ttctcgcggc tgggctactg atcgaagcag
     3601 gactggtaga cacaaaaaca ggcgagctat gctataaaaa agacaggata ttacaagcac
     3661 ttaaggaact taagtacgat ctggagacat ccccaaaccc agacgcgtaa gtgcctccat
     3721 ccgtgttccg attccctggt gcttcctcgc tcattcgctc gctacgctcg gtcatgagac
     3781 tgcggcgagc actaccacca caatcacgcg gaaagccgcg ccattgcagg gctgaacggg
     3841 gaaaaacggc aaaaaacctg ctgctcaaaa agacgccaga aaggcgctgt tatctgatat
     3901 aggcttattt ggtctactct acgagacctc gttttttcag ttggtaatac caggcgcgac
     3961 tgatccctaa tgcctcccac ggtttcagcg tgcgtgcaga tgtagctact gtgctgcgct
     4021 tagacttaga accgcccttg cgaccgcgtg cagcctgaat ttctggcgtg tgcgtatcag
     4081 ccacatactg tgcgaaagtt tccggcgtga agttcctgtg cgtgtatttc gcaatgctct
     4141 tgccaatagc ccgacattca gccagtgaaa gcggaacggg aagcgatgca ttgtacattt
     4201 cgacacgctg gatcaccgct tcaagccact gtgagaacgc tggccagccc tgacgaatcg
     4261 ccctgtaagc ccatttgcgc gtcatttcga acaggtggca gtttcgcccc atcccgtaat
     4321 gtttatcgat gctacgacgc tctgaggcgc tcaaatcgag ataatcagcc agttcatcga
     4381 gggtataggc ttcctcgcgc cactccatca ccagccattc caggtggaac ggatttttgc
     4441 aaatcaggcc gctgtagttc acatccgcac aaagtttctc acacagcgaa cgttcaaccg
     4501 ctgcggcata tttcagcgcc ttaaccgagg catcaggcgc ggttctcacg gcgatgttga
     4561 gtgcgtagag caggtgagcg tgtccgttca caggattttt aacggtgatg ttcggcgcgg
     4621 gagcgttccg gtcgctccag tcaatcgcag ccccctcgcg gtcaacgtca aaaaccagcc
     4681 agaactgtgc atgaggctgg ttctgctgga tataccgtgc aagaagcgcg cgccctttgc
     4741 cggagatacg aaggccgaaa gcgagatcat ccgtgtgata gggacggtgg ggtaaatttt
     4801 cttcgaagta ttgaagcgcg gcgctcatgt gttacgattc cttccaggtt atcgaccgac
     4861 atcgcccctg tattttcgtg aaagtcttgg cggatagaca cgaatttcag gggcgtttgt
     4921 ttttcagtcg cttacactac acccaacggc aaatcctgtc gatccttccc gaaaaaccga
     4981 tccatttacc ataactcccg ttgtacgtac catgtaaaac gccatcaatc gctttctggc
     5041 gcaaaaaacg caaaaagaca agaaaacacc aggccaaacc agaaaaacgc gtcagaatcg
     5101 ttttcagggc gttgcataac tatgcacgaa agcgatgtgc gatcggtttc gtgcgttctg
     5161 aaca
//
