LOCUS       NZ_CP070013             5167 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1288 plasmid unnamed6, complete
            sequence.
ACCESSION   NZ_CP070013
VERSION     NZ_CP070013.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357430
            Assembly: GCF_016903935.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5167)
  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  JOURNAL   Unpublished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 5167)
  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                   :: 1384.73x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:06:01
            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)                     :: 5,672
            CDSs (total)                      :: 5,545
            Genes (coding)                    :: 5,328
            CDSs (with protein)               :: 5,328
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 217
            CDSs (without protein)            :: 217
            Pseudo Genes (ambiguous residues) :: 0 of 217
            Pseudo Genes (frameshifted)       :: 67 of 217
            Pseudo Genes (incomplete)         :: 153 of 217
            Pseudo Genes (internal stop)      :: 34 of 217
            Pseudo Genes (multiple problems)  :: 36 of 217
            Pseudo Genes (short protein)      :: 4 of 217
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070013.1.
            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..5167
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1288"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1288"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(4839..5167,1..70))
                     /locus_tag="I6K18_RS28020"
                     /old_locus_tag="I6K18_28020"
     CDS             complement(join(4839..5167,1..70))
                     /locus_tag="I6K18_RS28020"
                     /old_locus_tag="I6K18_28020"
                     /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            247..1173
                     /locus_tag="I6K18_RS28025"
                     /old_locus_tag="I6K18_28025"
     CDS             247..1173
                     /locus_tag="I6K18_RS28025"
                     /old_locus_tag="I6K18_28025"
                     /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            1176..1709
                     /locus_tag="I6K18_RS28030"
                     /old_locus_tag="I6K18_28030"
     CDS             1176..1709
                     /locus_tag="I6K18_RS28030"
                     /old_locus_tag="I6K18_28030"
                     /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(1775..1984)
                     /locus_tag="I6K18_RS28035"
                     /old_locus_tag="I6K18_28035"
     CDS             complement(1775..1984)
                     /locus_tag="I6K18_RS28035"
                     /old_locus_tag="I6K18_28035"
                     /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            3721..4635
                     /locus_tag="I6K18_RS28040"
                     /old_locus_tag="I6K18_28040"
     CDS             3721..4635
                     /locus_tag="I6K18_RS28040"
                     /old_locus_tag="I6K18_28040"
                     /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          3722..4496
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          248..1170
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cggtctgttc tccgagcttc ctgatgaatc cgatccgttt cttcagccat tcgatgttgc
       61 tgatgcgcat gttcgtgatg ctccctggtg tttttttgcg gtgtgttgtg gtcgtgcagt
      121 atatcgcttg cggtcggcgg gtgcaggggg tatcttccgt gctaattcgt aaaattagaa
      181 ggaagcgcac ttatatgttt ctctccttcg tcgagaaaca gtgcgctcct gcagagggct
      241 gaaaccgtgg caacctatca cctcagcgtt aaatttggtg gcaaggggca ggctgcaaac
      301 cacgccgatt acatcgagcg caaagagaaa taccgcgacc gtcaggattt ggaatattcc
      361 gcacacggaa acatgccgga atgggccagg gataatcctt cccatttctg gcaggcggct
      421 gaccagtttg aacgtgcgaa cggttcgacc tatagggaac ttgaaattgc attaccccgt
      481 gaactgacac cggaacagcg ccttgaactg gtgcaggatt ttgtacgtca ggaagctggc
      541 gaacggcacg cctggagttt tgccattcac aatccgaaag cgagcattga cggcggcgaa
      601 cagcctcatg cgcatatcat gatgagtcag cgtgtgaatg atggcattga acgtacaccg
      661 gaacagtatt tccggcgcta taacgccagg tatcccgagc ggggaggtgc gaaaaaggat
      721 tccggaagcc tgactctcac tcagcaaaaa gagcagttgc gggaattgcg aaaacgctgg
      781 gaggtgaagc acaacgaaca tatgagaaag catggctttg aaaggggctt cattgactgc
      841 cggacgctga aagaacaggg cattgaacga cgtcccgaag tgcatctggg ttttgaagct
      901 gccggacggc ttgatgatgc ccagcgtcat gacatcatgc aaaaacggtc tgaaccggac
      961 tattcccgcc atcttgaaca ggcgcgaacg gtcgggcatg acatcaggga atggctggac
     1021 actccggtta agcaacatga actggtcaga aggctgcaac atgatgttgc gcgggagcat
     1081 ggctttgaca tgagagacag agtgagcaga cagaaccgaa ctgcacctga acgggttaaa
     1141 tcaccgtcac gtggattttc tatgggattc tgaacatggc cagcacagaa gaaaaattac
     1201 tcacgctcct gttatcggtg gagcatctgc aacataccgc aatggagcaa cagaaagctg
     1261 ttgctgattc tctggctgtg gcaagggaaa ctcttcgcgg atatcgggat atttctgacg
     1321 gtgtggcaaa acaggtcagg gatgaagtca gaaatgaggt gcagaagctg gacgtggcag
     1381 gactgatagg tgagcgcatc agccaggatt ttcagcggct ggaagagtca gtcgcaaaca
     1441 tgaaggcaaa cgcggatgcc ctgaacaggg atattgcgac aattcacagc aatatcgtgc
     1501 aggaatacaa cacccttaaa gggtatagct ggaaatggct gggtggggtg tcagtggctt
     1561 ttctggttat gttctgtgtg ctcggatggg gaatgaaaac aatactcgac aggaactaca
     1621 acgccacagc ggcggtgtat cagaaagttg tgacactgga agataaactg gtggagaaac
     1681 ctgtcacggg gaagagccgg aaaaactgac gcgcttcgct tgtccaacgc ctcacgaccc
     1741 gcgaaaggat ttcgcgaacc gttcaccgtt tttttcaata tgattctgtc tgctttggtc
     1801 gataaagcag acgatagtat tccagccttc gtatatataa cggtacgtgc tcatcagtaa
     1861 gagctggcgg tattgtgtta tcagggggaa gttttttcag atactcacga aatgcctggc
     1921 ttgatgccat aaaatctaca gtagcatcga taatatgtgg ggtgttttca cctaattttg
     1981 ccatgatgat aatccttata ttatcacggt ttgtgaatga tagggtgtca ctattattta
     2041 tgcgttagtg aaccagaaaa aatcccccgt tggcataggg ggatatgtaa ggagaaataa
     2101 cttcgcaggt gttcttgttt gtataacgtg aaaagactgc acgcaactta ataagtctgc
     2161 cgtacttact ttcagttttc aacataaggt ttataacaat gtatggaatg gaagtgagct
     2221 ttaaggtttc agctctaaaa aataaaatat ttattagttg gctggttgtt gttcttgttc
     2281 tgtatgtata taaacactat cgacatatta tgaccgggaa cattccttac cccctctgcg
     2341 ctcgcagagg ttttttttgt cattaattaa taatgaactg aaatgcagtt ccgatacctc
     2401 catttgcaca ttatccctga catatggtac cggaaccgca ttaattttat gttataagag
     2461 tttattttta atgtccagat ggtttaatag tatttatatg taattagctg tatggatagt
     2521 actggtttta ttgtataact tgtcgttttt ttttattgtt tttgtgtggt gtgctaatct
     2581 ttaagttata aaaaaacccc ttggaataca ggggcaaaag taaggaaaac aaatggatgc
     2641 tcagtttgtg tgacacttta aactaatgga actatagagt ggaggttgtt acagtcgctt
     2701 ttataaaaca gcaaccagtt tttttcaata gtctgatgat ggttgtgaca gttttgtgat
     2761 attgttcaaa atgtttcttg ttgaatgttt gttttttggt ctattggtgt ctggttttat
     2821 tttttctgct attacatatc aagaaatgtg attggtgtag caagagtgga atgcgatgtg
     2881 gataaactaa ttggttgtcg aatctaattt acttagaaaa ctacacttgt ttttgtgtat
     2941 gaatttagtg aatttgtctg tctatgtgtt ttcgtgcatt tataaatcct tcgtcaggat
     3001 cttaaattta gtgttgaata tgtagggcct gtacggtaat tattatttag cgtagctact
     3061 tcatcgttgt tcgaacacaa ccaacaacct gtaattgttg tttctcttgg ttccccactt
     3121 ttgtggggtt ttttatctct tccgtgcatc gtaaagcgcg gactccttct ggaaaggttg
     3181 ttttagggca tcactgaggc attttttgcg tttgtgaata ttgagcatcc gataactaaa
     3241 atatttccca tagactctga ttcttgccac cgaccccagg tcggtttttt tttgtcctgg
     3301 cgagatgtga agtttggaaa caggaaaccc cgtcagagcg ccacgcacca ggggagaaaa
     3361 cttgtcgttt tgagccgttc ggtgttcaga acgcacgaaa ccgatcgcac atcgctttcg
     3421 tgcatagtta tgcaacgccc tgaaaacgat tctgacgcgt ttttctggtt tggcctggtg
     3481 ttttcttgtc tttttgcgtt ttttgcgcca gaaagcgact gagggcgttt taaggggggc
     3541 gtacaacggg agttatggta aatggatcgg gttttcggga aggttcgaca ggatttgccg
     3601 ttgggtgtag tgtaagcgac tgaaaaacaa acgcccctga aatcatgtcc agatccggca
     3661 agattcaaca tgaaatacag agggcgtgta ggtcgcataa cccggagaga atcgtaacac
     3721 atgagcgccg cgcttcaata cttcgacgaa aatttacccc atcgtcccta tcacacggat
     3781 gatctcgctt ttggtcttcg catctccggc aaagggcgtg cgcttcttgc gcggtacata
     3841 cagcagaacc agcctcatgc gcagttctgg ctggtttttg acgttgaccg cgagggggct
     3901 gcgattgact ggagcgaccg gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg
     3961 aacggacacg ctcacctgct ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc
     4021 tcggttaagg cgctgaaata tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt
     4081 gcggatgtga actacagcgg cctgatttgc aaaaatccgt tccacctgga atggctggtg
     4141 atggagtggc gcgaggaagc ctataccctc gatgaactgg ctgattatct cgatttgagc
     4201 gcctcagagc gtcgtagcat cgataaacat tacgggatgg ggcgaaactg ccacctgttc
     4261 gaaatgacgc gcaaatgggc ttacagggcg attcgtcagg gctggccagc gttctcacag
     4321 tggcttgaag cggtgatcca gcgtgtcgaa atgtacaatg catcgcttcc cgttccgctt
     4381 tcactggctg aatgtcgggc tattggcaag agcattgcga aatacacgca caggaacttc
     4441 acgccggaaa ctttcgcaca gtatgtggct gatacgcaca cgccagaaat tcaggctgca
     4501 cgcggtcgca agggcggttc taagtctaag cgcagcacag tagctacatc tgcacgcacg
     4561 ctgaaaccgt gggaggcatt agggatcagt cgcgcctggt attaccaact gaaaaaacga
     4621 ggtctcgtag agtagaccaa ataagcctat atcagataac agcgcctttc tggcgtcttt
     4681 ttgagcagca ggttttttgc cgtttttccc cgttcagccc tgcaatggcg cggctttccg
     4741 cgtgattgtg gtggtagtgc tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc
     4801 gaggaagcac cagggaatcg gaacacggat ggaggcactt acgcgtctgg gtttggggat
     4861 gtctccagat cgtacttaag ttccttaagt gcttgtaata tcctgtcttt tttatagcat
     4921 agctcgcctg tttttgtgtc taccagtcct gcttcgatca gtagcccagc cgcgagaaag
     4981 agccggtgat tgcgttcccg tcgttgtttt tttccctcga ttcgtttttg gaccgcctgt
     5041 tttcgttcgc tctcctgtgc ctgtaagtcg tttttttccg ctgttgccag tacgtggaga
     5101 agtttgcgtt cctgttctgt gagtccggct tcgttgtcga tcaggtcaat aatctgtctc
     5161 tgtcgtg
//
