LOCUS       NZ_CP070002             5631 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1300 plasmid unnamed6, complete
            sequence.
ACCESSION   NZ_CP070002
VERSION     NZ_CP070002.1
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 5631)
  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  JOURNAL   Unpublished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 5631)
  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
            CP070002.1.
            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..5631
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1300"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1300"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            407..937
                     /locus_tag="I6K30_RS26775"
                     /old_locus_tag="I6K30_26780"
     CDS             407..937
                     /locus_tag="I6K30_RS26775"
                     /old_locus_tag="I6K30_26780"
                     /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="MbeB family mobilization protein"
                     /protein_id="WP_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            944..1177
                     /locus_tag="I6K30_RS26780"
                     /old_locus_tag="I6K30_26785"
     CDS             944..1177
                     /locus_tag="I6K30_RS26780"
                     /old_locus_tag="I6K30_26785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1658..2710
                     /locus_tag="I6K30_RS26785"
                     /old_locus_tag="I6K30_26790"
     CDS             1658..2710
                     /locus_tag="I6K30_RS26785"
                     /old_locus_tag="I6K30_26790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            2712..3578
                     /locus_tag="I6K30_RS26790"
                     /old_locus_tag="I6K30_26795"
     CDS             2712..3578
                     /locus_tag="I6K30_RS26790"
                     /old_locus_tag="I6K30_26795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(4781..4972)
                     /locus_tag="I6K30_RS26795"
                     /old_locus_tag="I6K30_26800"
     CDS             complement(4781..4972)
                     /locus_tag="I6K30_RS26795"
                     /old_locus_tag="I6K30_26800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            5037..5360
                     /locus_tag="I6K30_RS26800"
                     /old_locus_tag="I6K30_26805"
     CDS             5037..5360
                     /locus_tag="I6K30_RS26800"
                     /old_locus_tag="I6K30_26805"
                     /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="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          4606..4687
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          3962..4149
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          2..1281
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.063"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          5005..5357
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.458"
                     /coverage="100.0"
                     /evalue="3.2e-69"
ORIGIN
        1 gtggagcacc aggacaaggg acggcttgag ctgaattttg tcattccgaa catggagcta
       61 cagaccggaa aacgcctcca gccgtactac gaccgggcag acaggccgag aattgatgcc
      121 tggcagacgc tggtgaatca ccattacggg ctgcatgacc ccaacgcccc ggagaaccgc
      181 cggatactga ctctctctga taacctgccg gaaacgaaac aggcgcttgc agagagcgtc
      241 acacgcggga tagacgctct ttatcatgtc ggggagataa aaggccgtca ggatgtgatt
      301 caggcgctca cagaggcggg gcttgaagtg gtcagggtga cgcgaagcag tatcagcatt
      361 gcagacccga acggcgggag gaatatcaga ctgaaaggag cgttttatga gcaatctttt
      421 acagacgggc gcggagttcg agaaaaagct gaaagagaga gccgaatcta cagagaaaat
      481 gctgaacgac gagttcagga agctcgaaga atctgtaaac agggaactga cctcaaacga
      541 atctttaatc aggaacgcta tcaacgacca tacaacagcc ctgaaagaac tgctggagag
      601 gtatcagaaa acgaccgtcg atacgatgga cgcgcactgg aaaaccgtac tgaaaatgag
      661 cgtgaaacgc tggctgtggc tgattatcgt ctcagtactg atgtttgcca cgaccgggag
      721 tctgctgtgg taccagggca tgaagataaa cgcgaatatg aatattctcc gcgagcagaa
      781 agagagtctg gagaagctga acgcgaagac atggggcgtg cgttatcacg aggacagcaa
      841 cggacgtttt ctggtgttgc cgaaggggat gaaagccgaa acgaactgga cgaaggacaa
      901 cggcaaactg aacgcagtga gactggtgca ggagtgacag agcatgacgg agctggaaag
      961 acatttgctg aacgcattag agcaactgca acaggactat atgcagcggc tgaacgaatg
     1021 ggagaacgcc ttcgtggaat tgcagaaaat gttttcgctt acgcaacggg acaacgcgat
     1081 gctgaacggg cgagtcatgc agttgagtca gcaggtgcag cacttgagcg agcggacaga
     1141 acgcttgagc cagttataca gcgagaacag gagataaggg atgaacggct gatgcaggaa
     1201 cgcgaacatg agttatctct ggagcgggag cgtcagccgg aaatccagga gcggacactg
     1261 gatggccctt cgctgggatg gtgaaaccat gaaaaatgac gtgttcagtg gattaaggcg
     1321 ggctaatgtg gcctgtagca tctggttgca taggtattca tgcggttaaa atttatcagg
     1381 tgcgatcgcg gcagtttttc gggtggtttg ttgccatttt tacctgtctg ctgccgtgat
     1441 cgcaccgaac gcgttttggc ggtgcgtaca atgcgacgtt atggtaaatg gagcggattt
     1501 tcaggaagga gtgatactaa caactcgaac actgtgcaaa taatgatttt tttaaaatat
     1561 cggtaacgat aataaattac ttcgttttac gccggtaata aatataatgt agtttcagta
     1621 tataaaaaaa tatatgaggt gtcttgtggg agctttcatg aatcttcaac aacgtataaa
     1681 taaactacca caattatcat ccagtttttc atttggaaaa gatattgata atattcattc
     1741 atttatcttt aacgaaactt ctaaagataa aattgaagat ttactaagaa aatgggtgtc
     1801 aggcaatcag ccctgtgtat ttggtaaatt ggcaagcaag aaaattaaag ggcttgattt
     1861 ccatttatct attgtaaata gcccccaact atataatgat gatggtcatt tgtttgattt
     1921 tttgcgtaat gaaagagttc gttttaaaga acgcgcaaga agaggagagg tcagtgcgca
     1981 tctcatttat tttattcatc cacaacttgc ctttgctcgt ccatcagaag agttagtgga
     2041 catacaaaaa tatatttgtt cgctgcatat gccagagtgc tatccaataa aagaggatgt
     2101 tatttatact gaaagcgtac catttcagga taaagatggg ctaaaaatat ataaggctgg
     2161 tgttaatgtt ttttactctt ctgctcatag aacaagaaat catgatagaa gaataccagg
     2221 gggaatactt atttctgtaa atgccccggg gcattttatg aggctggcga tagaaaaagg
     2281 tttctataaa gatcaagaac aagcgttagc ggatattcgt aacatgacta ttcagtctgt
     2341 tggtaagggt gggtattcac atccggaagg gatttctaca acatggcatt cagaatctaa
     2401 tttggatcgt tttggatgcc cagtgcacac cggtaatagt tcttattaca gcggttttta
     2461 tcatactgat gtattaattc caggagaatt aactaaggat gaaagattgc tccatgaaat
     2521 agaaaatagt gatccaatga tcttcaactg gaatgtattg ttttatgttt cattagaaga
     2581 gtttcctata gatgatcctt attatggaga gtttattggt attcctgtag atgatgcatc
     2641 tatgtttttt aactcctttc aaccaaggaa atttgaaaac aaaccccttt atgagaaaga
     2701 ggatgattaa tatgattaaa ggaatgcttt ttgctttttt agcagcgttc tcatgggggg
     2761 cagctatcgt aatgagcaaa aaaggagttg aagaactaga tgccggaggg gtgtttttct
     2821 ggcagatttg tagtgcagta atactatctt ggatagttct ttttataaaa agaaaaaaac
     2881 tcccattaaa ctcaaaagcg atacttgctt atgcgacagg cgtttttgaa ccattcttag
     2941 cgtatacttt tacactctac ggactttatt ttatttcagc aggaagcgca tcaattattt
     3001 tttcacttga atcagtgttt atattggtgt tgtctgttct tatttgctca gttaaaatta
     3061 attccccgca atattttata ttgttcctta taggtgcaat tgttggcagt attttggtag
     3121 ccttgccaga catcagtaat ggatcgaata atattgttgg atattgtctt gttgttgccg
     3181 gtgtgttatc ggcagcattt tatgttgtta tatcgtctcg ccttattaaa tcgtttgagc
     3241 ctatcacatt attgagcgga cagttgacat tctcccttat actgtcatcg ctctttattt
     3301 ttatatctaa atcatcaatt tatcttccgt tggaatccgt gattattgtt ttttcatctg
     3361 gaatattaca atatttttta gctttttgtt tttacttgaa ctccttgcgt tggctcccag
     3421 ttcatttggc agggataatg ttgtacttta ttccgctagt tgcattattt ttgtcatggt
     3481 tgtttttgga tgaacaattc acattcttac agggggtagg atttattgta actgtgctaa
     3541 gtgtatattt tcttaacaga aaatactcag aggagtaaca ttctgttcag gattgccccc
     3601 cggcctccat cgataccgtg ccaaatgcac gtaaaaaacg ggagcgtttc tggtgtcgga
     3661 atgtaaccaa gggggtcaga ggcgcgctaa aacgctctca ggggagtcaa atagagacgt
     3721 ttgtaacaaa aagatcaaag gatcctcttg agatcctttt tttctgcgcg taatctgctg
     3781 cctgtaaacg aaaaaaccgc cttgcagggc ggtttgatcg aaggttaagt cagcttgcag
     3841 actgcttaac caggtaactg tcttatgcga gacgagtcac caaaattgtt cttctagtgt
     3901 agccgcactc cggcagccac ttcaagtact ctctaaatat ctcgcacatg acttttacca
     3961 atggctgctg ccagtggcgc tttgtggtgt cttttccggg ttggacccaa gagaacagtt
     4021 accggagaag gcgcagcagt cgggctgaac ggggggttcc tgcatacagc ccagcccgga
     4081 gcgaactgcc taagtcgccc cgagatacca gaagacgtga gctatgagaa agcgccacgt
     4141 gtcccgtaag ggagaaaggc ggaaaaggta tccggtaatc gatatggcgg gaacgtgggg
     4201 gcgcaggagg gagcgattca ccggaaacgg tgatgatctt taagccacgt cgggtttcgc
     4261 caccgctggc ggatttcatg gttgagccgc aaggctccca cagatgcacc gaaaaagtgt
     4321 ctgttttgtg aagtccgtca ggggggcgga gcctatggaa aaagcgcctc cggcgcggcc
     4381 tttcccgggg tttcgttttt tgcgcacatg ttctttcctg gtttatcccc gggttctgtg
     4441 gataacaggg ttagcgtttt tgagaaagga gagtccgctc gccgcagccg aacgaccgag
     4501 cgtagcgagt cagtgagcga ggaagcggaa gagcgcctga actggcattt tctccttacg
     4561 catctgtgcg gcatttcaca ccggacatgg cgcacttttc atacaatccg cactgatgcc
     4621 gaatggttaa gccagtatac actccgctat cgctacgtga ctgggtcagg gcttcgcccc
     4681 gacaccccaa aggtcaacgg cctgacgcgc cctggcgggc ttgtctgctc ccggcatccg
     4741 ctcacagaca agctgtgacc gtctccggga gctgcatgtg tcagcggttt tcaccgtcat
     4801 ccccgaagcg tgcgaggcaa ctgcggtaaa gctcatcggc gtggtcgtga agcgattcac
     4861 agatgtctgc ctgttcatcc gcgtccagtt cgttgagctt ctccagcagc gttaatgtct
     4921 ggcctctgat gaagcgggcc atgttaaggg cggttttttc ctgtttggtc actgatgcct
     4981 ccgtgtaagg gggggttctg ttcatggggg taatgatacc gatgaaacgc gagaggatgc
     5041 tcacgatacg ggttactgat gatgaacatg cccggttact ggaacgctgt gagggtaaac
     5101 aactggcggt atggatgcgg cgggtctgcc tgggtgagcc ggttgcccgt tccgggaagc
     5161 tgccgacact ggcaccgccg ttactgcgtc agctggccgc catcgggaat aaccttaacc
     5221 agacagcgag gaaggtgaac agcgggcagt ggtcttccgg tgaccgggtt caggtggtgg
     5281 ccgcactgat ggccatcggg gatgagctgc gccggctgcg tctggcggtc agggaacagg
     5341 gggcgcggga tgatagttaa gtttcatgcc cggggaaaag gtggtggcag tggtccggtt
     5401 gattacctgc tgggaaggga gcgtaaccgg gaaggggcaa cggtgcttca gggtaatccg
     5461 gaagaagtac gggaactcat cgatgccacg ccatttgcga agaaatacac gtccggtgtg
     5521 ctgtcgttcg cggagaagga gctgccaccg ggaggacgtg aaaaggtgat ggcgagcttt
     5581 gagcgtgtac tgatgcccgg tctcgaaaaa aatcagtaca gcatcctgtg g
//
