LOCUS       NZ_CP069591             5631 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1266 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP069591
VERSION     NZ_CP069591.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357408
            Assembly: GCF_016890105.1
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  JOURNAL   Unpublished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, SPAdes v. 3.14.1
            Genome Coverage                   :: 586.93x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:16:32
            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)                     :: 5,156
            CDSs (total)                      :: 5,043
            Genes (coding)                    :: 4,844
            CDSs (with protein)               :: 4,844
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 199
            CDSs (without protein)            :: 199
            Pseudo Genes (ambiguous residues) :: 0 of 199
            Pseudo Genes (frameshifted)       :: 69 of 199
            Pseudo Genes (incomplete)         :: 143 of 199
            Pseudo Genes (internal stop)      :: 37 of 199
            Pseudo Genes (multiple problems)  :: 45 of 199
            Pseudo Genes (short protein)      :: 3 of 199
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069591.1.
            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_1266"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1266"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(5439..5631,1..860)
                     /locus_tag="I6J96_RS25415"
                     /old_locus_tag="I6J96_25415"
     CDS             join(5439..5631,1..860)
                     /locus_tag="I6J96_RS25415"
                     /old_locus_tag="I6J96_25415"
                     /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_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            862..1728
                     /locus_tag="I6J96_RS25420"
                     /old_locus_tag="I6J96_25420"
     CDS             862..1728
                     /locus_tag="I6J96_RS25420"
                     /old_locus_tag="I6J96_25420"
                     /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(2931..3122)
                     /locus_tag="I6J96_RS25425"
                     /old_locus_tag="I6J96_25425"
     CDS             complement(2931..3122)
                     /locus_tag="I6J96_RS25425"
                     /old_locus_tag="I6J96_25425"
                     /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            3187..3510
                     /locus_tag="I6J96_RS25430"
                     /old_locus_tag="I6J96_25430"
     CDS             3187..3510
                     /locus_tag="I6J96_RS25430"
                     /old_locus_tag="I6J96_25430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /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"
     gene            3719..>4150
                     /locus_tag="I6J96_RS25865"
                     /pseudo=""
     CDS             3719..>4150
                     /locus_tag="I6J96_RS25865"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            4188..4718
                     /locus_tag="I6J96_RS25440"
                     /old_locus_tag="I6J96_25440"
     CDS             4188..4718
                     /locus_tag="I6J96_RS25440"
                     /old_locus_tag="I6J96_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /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            4725..4958
                     /locus_tag="I6J96_RS25445"
                     /old_locus_tag="I6J96_25445"
     CDS             4725..4958
                     /locus_tag="I6J96_RS25445"
                     /old_locus_tag="I6J96_25445"
                     /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"
     Typing          2756..2837
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          2112..2299
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          3501..5062
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggcttgattt ccatttatct attgtaaata gcccccaact atataatgat gatggtcatt
       61 tgtttgattt tttgcgtaat gaaagagttc gttttaaaga acgcgcaaga agaggagagg
      121 tcagtgcgca tctcatttat tttattcatc cacaacttgc ctttgctcgt ccatcagaag
      181 agttagtgga catacaaaaa tatatttgtt cgctgcatat gccagagtgc tatccaataa
      241 aagaggatgt tatttatact gaaagcgtac catttcagga taaagatggg ctaaaaatat
      301 ataaggctgg tgttaatgtt ttttactctt ctgctcatag aacaagaaat catgatagaa
      361 gaataccagg gggaatactt atttctgtaa atgccccggg gcattttatg aggctggcga
      421 tagaaaaagg tttctataaa gatcaagaac aagcgttagc ggatattcgt aacatgacta
      481 ttcagtctgt tggtaagggt gggtattcac atccggaagg gatttctaca acatggcatt
      541 cagaatctaa tttggatcgt tttggatgcc cagtgcacac cggtaatagt tcttattaca
      601 gcggttttta tcatactgat gtattaattc caggagaatt aactaaggat gaaagattgc
      661 tccatgaaat agaaaatagt gatccaatga tcttcaactg gaatgtattg ttttatgttt
      721 cattagaaga gtttcctata gatgatcctt attatggaga gtttattggt attcctgtag
      781 atgatgcatc tatgtttttt aactcctttc aaccaaggaa atttgaaaac aaaccccttt
      841 atgagaaaga ggatgattaa tatgattaaa ggaatgcttt ttgctttttt agcagcgttc
      901 tcatgggggg cagctatcgt aatgagcaaa aaaggagttg aagaactaga tgccggaggg
      961 gtgtttttct ggcagatttg tagtgcagta atactatctt ggatagttct ttttataaaa
     1021 agaaaaaaac tcccattaaa ctcaaaagcg atacttgctt atgcgacagg cgtttttgaa
     1081 ccattcttag cgtatacttt tacactctac ggactttatt ttatttcagc aggaagcgca
     1141 tcaattattt tttcacttga atcagtgttt atattggtgt tgtctgttct tatttgctca
     1201 gttaaaatta attccccgca atattttata ttgttcctta taggtgcaat tgttggcagt
     1261 attttggtag ccttgccaga catcagtaat ggatcgaata atattgttgg atattgtctt
     1321 gttgttgccg gtgtgttatc ggcagcattt tatgttgtta tatcgtctcg ccttattaaa
     1381 tcgtttgagc ctatcacatt attgagcgga cagttgacat tctcccttat actgtcatcg
     1441 ctctttattt ttatatctaa atcatcaatt tatcttccgt tggaatccgt gattattgtt
     1501 ttttcatctg gaatattaca atatttttta gctttttgtt tttacttgaa ctccttgcgt
     1561 tggctcccag ttcatttggc agggataatg ttgtacttta ttccgctagt tgcattattt
     1621 ttgtcatggt tgtttttgga tgaacaattc acattcttac agggggtagg atttattgta
     1681 actgtgctaa gtgtatattt tcttaacaga aaatactcag aggagtaaca ttctgttcag
     1741 gattgccccc cggcctccat cgataccgtg ccaaatgcac gtaaaaaacg ggagcgtttc
     1801 tggtgtcgga atgtaaccaa gggggtcaga ggcgcgctaa aacgctctca ggggagtcaa
     1861 atagagacgt ttgtaacaaa aagatcaaag gatcctcttg agatcctttt tttctgcgcg
     1921 taatctgctg cctgtaaacg aaaaaaccgc cttgcagggc ggtttgatcg aaggttaagt
     1981 cagcttgcag actgcttaac caggtaactg tcttatgcga gacgagtcac caaaattgtt
     2041 cttctagtgt agccgcactc cggcagccac ttcaagtact ctctaaatat ctcgcacatg
     2101 acttttacca atggctgctg ccagtggcgc tttgtggtgt cttttccggg ttggacccaa
     2161 gagaacagtt accggagaag gcgcagcagt cgggctgaac ggggggttcc tgcatacagc
     2221 ccagcccgga gcgaactgcc taagtcgccc cgagatacca gaagacgtga gctatgagaa
     2281 agcgccacgt gtcccgtaag ggagaaaggc ggaaaaggta tccggtaatc gatatggcgg
     2341 gaacgtgggg gcgcaggagg gagcgattca ccggaaacgg tgatgatctt taagccacgt
     2401 cgggtttcgc caccgctggc ggatttcatg gttgagccgc aaggctccca cagatgcacc
     2461 gaaaaagtgt ctgttttgtg aagtccgtca ggggggcgga gcctatggaa aaagcgcctc
     2521 cggcgcggcc tttcccgggg tttcgttttt tgcgcacatg ttctttcctg gtttatcccc
     2581 gggttctgtg gataacaggg ttagcgtttt tgagaaagga gagtccgctc gccgcagccg
     2641 aacgaccgag cgtagcgagt cagtgagcga ggaagcggaa gagcgcctga actggcattt
     2701 tctccttacg catctgtgcg gcatttcaca ccggacatgg cgcacttttc atacaatccg
     2761 cactgatgcc gaatggttaa gccagtatac actccgctat cgctacgtga ctgggtcagg
     2821 gcttcgcccc gacaccccaa aggtcaacgg cctgacgcgc cctggcgggc ttgtctgctc
     2881 ccggcatccg ctcacagaca agctgtgacc gtctccggga gctgcatgtg tcagcggttt
     2941 tcaccgtcat ccccgaagcg tgcgaggcaa ctgcggtaaa gctcatcggc gtggtcgtga
     3001 agcgattcac agatgtctgc ctgttcatcc gcgtccagtt cgttgagctt ctccagcagc
     3061 gttaatgtct ggcctctgat gaagcgggcc atgttaaggg cggttttttc ctgtttggtc
     3121 actgatgcct ccgtgtaagg gggggttctg ttcatggggg taatgatacc gatgaaacgc
     3181 gagaggatgc tcacgatacg ggttactgat gatgaacatg cccggttact ggaacgctgt
     3241 gagggtaaac aactggcggt atggatgcgg cgggtctgcc tgggtgagcc ggttgcccgt
     3301 tccgggaagc tgccgacact ggcaccgccg ttactgcgtc agctggccgc catcgggaat
     3361 aaccttaacc agacagcgag gaaggtgaac agcgggcagt ggtcttccgg tgaccgggtt
     3421 caggtggtgg ccgcactgat ggccatcggg gatgagctgc gccggctgcg tctggcggtc
     3481 agggaacagg gggcgcggga tgatagttaa gtttcatgcc aggggaaaag gtggtggcag
     3541 tggtccggtt gattacctgc tgggaaggga gcgtaaccgg gaaggggcaa cggtgcttca
     3601 ggggaatccg gaagaggtcc gggaactcat cgatgccacg ccatttgcga agaaatacac
     3661 gtcaggtgtt ctgtcgttcg cggagaagga gctgccgcct ggagggcgtg aaaaagtgat
     3721 ggcgagcttt gagcgtgtac tgatgcccgg tctcgagaaa aatcagtaca gcatcctgtg
     3781 ggtggagcac caggacaagg gacggcttga gctgaatttt gtcattccga acatggagct
     3841 acagaccgga aaacgcctcc agccgtacta cgaccgggca gacaggccga gaattgatgc
     3901 ctggcagacg ctggtgaatc accattacgg tctgcatgac cccaacgccc cggagaaccg
     3961 ccggacgctg acccttcctg ataacctgcc ggaaacgaaa caggcgcttg ctgagggcgt
     4021 cacacgcggg atagacgcgc tttaccatgc cggagagata aaaggccgtc aggatgtgat
     4081 tcaggcgctc acagaggcgg ggcttgaagt ggtcagggtg acgcgaagca gtatcagcat
     4141 tgcagacccg aacggcggga ggaatatcag actgaaagga gcgttttatg agcaatcttt
     4201 tacagacggg cgcggagttc gagaaaaagc tgaaagagag agccgaatct acagagaaaa
     4261 tgctgaacga cgagttcagg aagctcgaag aatctgtaaa cagggaactg acctcaaacg
     4321 aatctttaat caggaacgct atcaacgacc atacaacagc cctgaaagaa ctgctggaga
     4381 ggtatcagaa aacgaccgtc gatacgatgg acgcgcactg gaaaaccgta ctgaaaatga
     4441 gcgtgaaacg ctggctgtgg ctgattatcg tctcagtact gatgtttgcc acgaccggga
     4501 gtctgctgtg gtaccagggc atgaagataa acgcgaatat gaatattctc cgcgagcaga
     4561 aagagagtct ggagaagctg aacgcgaaga catggggcgt gcgttatcac gaggacagca
     4621 acggacgttt tctggtgttg ccgaagggga tgaaagccga aacgaactgg acgaaggaca
     4681 acggcaaact gaacgcagtg agactggtgc aggagtgaca gagcatgacg gagctggaaa
     4741 gacatttgct gaacgcatta gagcaactgc aacaggacta tatgcagcgg ctgaacgaat
     4801 gggagaacgc cttcgtggaa ttgcagaaaa tgttttcgct tacgcaacgg gacaacgcga
     4861 tgctgaacgg gcgagtcatg cagttgagtc agcaggtgca gcacttgagc gagcggacag
     4921 aacgcttgag ccagttatac agcgagaaca ggagataagg gatgaacggc tgatgcagga
     4981 acgcgaacat gagttatctc tggagcggga gcgtcagccg gaaatccagg agcggacact
     5041 ggatggccct tcgctgggat ggtgaaacca tgaaaaatga cgtgttcagt ggattaaggc
     5101 gggctaatgt ggcctgtagc atctggttgc ataggtattc atgcggttaa aatttatcag
     5161 gtgcgatcgc ggcagttttt cgggtggttt gttgccattt ttacctgtct gctgccgtga
     5221 tcgcaccgaa cgcgttttgg cggtgcgtac aatgcgacgt tatggtaaat ggagcggatt
     5281 ttcaggaagg agtgatacta acaactcgaa cactgtgcaa ataatgattt ttttaaaata
     5341 tcggtaacga taataaatta tttcgtttta cgccggtaat aaatataatg tagtttcagt
     5401 atataaaaaa atatatgagg tgtcttgtgg gagctttcat gaatcttcaa caacgtataa
     5461 ataaactacc acaattatca tccagttttt catttggaaa agatattgat aatattcatt
     5521 catttatctt taacgaaact tctaaagata aaattgaaga tttactaaga aaatgggtgt
     5581 caggcaatca gccctgtgta tttggtaaat tggcaagcaa gaaaattaaa g
//
