LOCUS       NZ_CP070143             5183 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1281 plasmid unnamed11.
ACCESSION   NZ_CP070143
VERSION     NZ_CP070143.1
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 5183)
  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  JOURNAL   Unpublished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 5183)
  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
            CP070143.1.
            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..5183
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1281"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1281"
                     /db_xref="taxon:562"
                     /plasmid="unnamed11"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            634..1548
                     /locus_tag="I6K11_RS27350"
                     /old_locus_tag="I6K11_27395"
     CDS             634..1548
                     /locus_tag="I6K11_RS27350"
                     /old_locus_tag="I6K11_27395"
                     /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_204682888.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1752..2150)
                     /locus_tag="I6K11_RS27355"
                     /old_locus_tag="I6K11_27400"
     CDS             complement(1752..2150)
                     /locus_tag="I6K11_RS27355"
                     /old_locus_tag="I6K11_27400"
                     /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_001222912.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHQLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            2327..3253
                     /locus_tag="I6K11_RS27360"
                     /old_locus_tag="I6K11_27405"
     CDS             2327..3253
                     /locus_tag="I6K11_RS27360"
                     /old_locus_tag="I6K11_27405"
                     /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            3256..3789
                     /locus_tag="I6K11_RS27365"
                     /old_locus_tag="I6K11_27410"
     CDS             3256..3789
                     /locus_tag="I6K11_RS27365"
                     /old_locus_tag="I6K11_27410"
                     /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(3855..4064)
                     /locus_tag="I6K11_RS27370"
                     /old_locus_tag="I6K11_27415"
     CDS             complement(3855..4064)
                     /locus_tag="I6K11_RS27370"
                     /old_locus_tag="I6K11_27415"
                     /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"
     Typing          635..1409
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.907"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          2328..3250
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacctgtaat tgttgtttct cttggttccc cacttttgtg gggtttttta tctcttccgt
       61 gcatcgtaaa gcgcggactc cttctggaaa ggttgtttta gggcatcact gaggcatttt
      121 ttgcgtttgt gaatattgag catccgataa ctaaaatatt tcccatagac tctgattctt
      181 gccaccgacc ccaggtcggt ttttttttgt cctggcgaga tgtgaagttt ggaaacagga
      241 aaccccgtca gagcgccacg caccagggga gaaaacttgt cgttttgagc cgttcggtgt
      301 tcagaacgta cgaaaccgat cgcacatcgc tttcgtgcat agttatgcaa cgccctgaaa
      361 acgattctga cgcgtttttc tggtttggcc tggtgttttc ttgtcttttt gcgttttttg
      421 cgccagaaag cgattgaggg cgttttaagg ggggcgtaca acgggagtta tggtaaatgg
      481 atcgggtttt cgggaaggtt cgacaggatt tgccgttggg tgtagtgtaa gcgactgaaa
      541 aacaaacgcc cctgaaattc gtgtctctcc gccaagattg tcacgagaat acaggggcga
      601 ggtcggtcga taacctggaa ggaatcgtaa cacatgagcg ccgcgcttca atacttcgaa
      661 gaaaatttac cccaccgccc ctatcacacg gatgatctcg cttttggtct tcgcatctcc
      721 ggcaaagggc gtgcgcttct tgcgcggtac atacagcaga accagcctca tgcgcagttc
      781 tggctggttt ttgacgttga ccgcgagggg gctgcgattg actggagcga ccggaacgct
      841 cccgcgccga acatcaccgt taaaaatcct gtgaacggac acgctcacct gctctacgca
      901 ctcaacatcg ccgtgagaac cgcgcctgat gcctcggtta aggcgctgaa atatgccgca
      961 gcggttgaac gttcgctgtg tgagaaactt tgtgcggatg tgaactacag cggcctgatt
     1021 tgcaaaaatc cgttccacct ggaatggcag gtgatggagt ggcgcgagga cgcctatacc
     1081 ctcgatgaac tggcagatta tctcgatttg agcgcctcag cgcgtcgtag catcgataaa
     1141 cattacggga tggggcgaaa ctgccacctg ttcgaaatga cgcgcaaatg ggcttacagg
     1201 gcgattcgtc agggctggcc agcgttctca cagtggcttg aagcggtgat ccagcgtgtc
     1261 gaaatgtaca atgcatcgct tcccgttccg ctttcactgg ctgaatgtcg ggctattggc
     1321 aagagcattg cgaaatacac gcacaggaac ttcacgccgg aaactttcgc acagtatgtg
     1381 gctgatacgc acacgccaga aattcaggct gcacgcggtc gcaagggcgg ttctaagtct
     1441 aagcgcagca cagtagctac atctgcacgc acgctgaaac cgtgggaggc attagggatc
     1501 agtcgcgcct ggtattacca actgaaaaaa cgaggtctcg tagagtagac caaataagcc
     1561 tatatcagat aacagcgcct ttctggcgtc tttttgagca gcaggttttt tgccgttttt
     1621 ccccgttcag ccctgcaatg gcgcggcttt ccgcgtgatt gtggtggtag tgctcgccgc
     1681 agtctcatga ccgagcgtag cgagcgaatg agcgaggaag caccagggaa tcggaacacg
     1741 gatggaggca cttacgcgtc tgggtttggg gatgtctcca gatcgtactt aagttcctta
     1801 agtgcttgta atatcctgtc ttttttatag catagctcgc ctgtttttgt gtctaccagt
     1861 cctgcttcga tcagtagccc agccgcgaga aagagctggt gattgcgttc ccgtcgttgt
     1921 ttttttccct cgattcgttt ttggaccgcc tgttttcgtt cgctctcctg tgcctgtaag
     1981 tcgttttttt ccgctgttgc cagtacgtgg agaagtttgc gttcctgttc tgtgagtccg
     2041 gcttcgttgt cgatcaggtc aataatctgt ctctgtcgtg cggtctgttc tccgagcttc
     2101 ctgatgaatc cgatccgttt cttcagccat tcgatgttgc tgatgcgcat gttcgtgatg
     2161 ctccctggtg tttttttgcg gtgtgttgtg gtcgtgcagt atatcgcttg cggtcggcgg
     2221 gtgcaggggg tatcttccgt gctaattcgt aaaattagaa ggaagcgcac ttatatgttt
     2281 ctctccttcg tcgagaaaca gtgcgctcct gcagagggct gaaaccgtgg caacctatca
     2341 cctcagcgtt aaatttggtg gcaaggggca ggctgcaaac cacgccgatt acatcgagcg
     2401 caaagagaaa taccgcgacc gtcaggattt ggaatattcc gcacacggaa acatgccgga
     2461 atgggccagg gataatcctt cccatttctg gcaggcggct gaccagtttg aacgtgcgaa
     2521 cggttcgacc tatagggaac ttgaaattgc attaccccgt gaactgacac cggaacagcg
     2581 ccttgaactg gtgcaggatt ttgtacgtca ggaagctggc gaacggcacg cctggagttt
     2641 tgccattcac aatccgaaag cgagcattga cggcggcgaa cagcctcatg cgcatatcat
     2701 gatgagtcag cgtgtgaatg atggcattga acgtacaccg gaacagtatt tccggcgcta
     2761 taacgccagg tatcccgagc ggggaggtgc gaaaaaggat tccggaagcc tgactctcac
     2821 tcagcaaaaa gagcagttgc gggaattgcg aaaacgctgg gaggtgaagc acaacgaaca
     2881 tatgagaaag catggctttg aaaggggctt cattgactgc cggacgctga aagaacaggg
     2941 cattgaacga cgtcccgaag tgcatctggg ttttgaagct gccggacggc ttgatgatgc
     3001 ccagcgtcat gacatcatgc aaaaacggtc tgaaccggac tattcccgcc atcttgaaca
     3061 ggcgcgaacg gtcgggcatg acatcaggga atggctggac actccggtta agcaacatga
     3121 actggtcaga aggctgcaac atgatgttgc gcgggagcat ggctttgaca tgagagacag
     3181 agtgagcaga cagaaccgaa ctgcacctga acgggttaaa tcaccgtcac gtggattttc
     3241 tatgggattc tgaacatggc cagcacagaa gaaaaattac tcacgctcct gttatcggtg
     3301 gagcatctgc aacataccgc aatggagcaa cagaaagctg ttgctgattc tctggctgtg
     3361 gcaagggaaa ctcttcgcgg atatcgggat atttctgacg gtgtggcaaa acaggtcagg
     3421 gatgaagtca gaaatgaggt gcagaagctg gacgtggcag gactgatagg tgagcgcatc
     3481 agccaggatt ttcagcggct ggaagagtca gtcgcaaaca tgaaggcaaa cgcggatgcc
     3541 ctgaacaggg atattgcgac aattcacagc aatatcgtgc aggaatacaa cacccttaaa
     3601 gggtatagct ggaaatggct gggtggggtg tcagtggctt ttctggttat gttctgtgtg
     3661 ctcggatggg gaatgaaaac aatactcgac aggaactaca acgccacagc ggcggtgtat
     3721 cagaaagttg tgacactgga agataaactg gtggagaaac ctgtcacggg gaagagccgg
     3781 aaaaactgac gcgcttcgct tgtccaacgc ctcacgaccc gcgaaaggat ttcgcgaacc
     3841 gttcaccgtt tttttcaata tgattctgtc tgctttggtc gataaagcag acgatagtat
     3901 tccagccttc gtatatataa cggtacgtgc tcatcagtaa gagctggcgg tattgtgtta
     3961 tcagggggaa gttttttcag atactcacga aatgcctggc ttgatgccat aaaatctaca
     4021 gtagcatcga taatatgtgg ggtgttttca cctaattttg ccatgatgat aatccttata
     4081 ttatcacggt ttgtgaatga tagggtgtca ctattattta tgcgttagtg aaccagaaaa
     4141 aatcccccgt tggcataggg ggatatgtaa ggagaaataa cttcgcaggt gttcttgttt
     4201 gtataacgtg aaaagactgc acgcaactta ataagtctgc cgtacttact ttcagttttc
     4261 aacataaggt ttataacaat gtatggaatg gaagtgagct ttaaggtttc agctctaaaa
     4321 aataaaatat ttattagttg gctggttgtt gttcttgttc tgtatgtata taaacactat
     4381 cgacatatta tgaccgggaa cattccttac cccctctgcg ctcgcagagg ttttttttgt
     4441 cattaattaa taatgaactg aaatgcagtt ccgatacctc catttgcaca ttatccctga
     4501 catatggtac cggaaccgca ttaattttat gttataagag tttattttta atgtccagat
     4561 ggtttaatag tatttatatg taattagctg tatggatagt actggtttta ttgtataact
     4621 tgtcgttttt ttttattgtt tttgtgtggt gtgctaatct ttaagttata aaaaaacccc
     4681 ttggaataca ggggcaaaag taaggaaaac aaatggatgc tcagtttgtg tgacacttta
     4741 aactaatgga actatagagt ggaggttgtt acagtcgctt ttataaaaca gcaaccagtt
     4801 tttttcaata gtctgatgat ggttgtgaca gttttgtgat attgttcaaa atgtttcttg
     4861 ttgaatgttt gttttttggt ctattggtgt ctggttttat tttttctgct attacatatc
     4921 aagaaatgtg attggtgtag caagagtgga atgcgatgtg gataaactaa ttggttgtcg
     4981 aatctaattt acttagaaaa ctacacttgt ttttgtgtat gaatttagtg aatttgtctg
     5041 tctatgtgtt ttcgtgcatt tataaatcct tcgtcaggat cttaaattta gtgttgtaaa
     5101 tgtaggtcct gtacggtaat tattatttag aatagctagt tcattgtggt tctaacagaa
     5161 ccaacaacct gtacttgttg ttt
//
