LOCUS       NZ_CP069579             4654 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1250 plasmid unnamed9.
ACCESSION   NZ_CP069579
VERSION     NZ_CP069579.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357392
            Assembly: GCF_016890005.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4654)
  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  JOURNAL   Unpublished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 4654)
  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                   :: 770.24x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:03:03
            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)                     :: 5,029
            CDSs (total)                      :: 4,910
            Genes (coding)                    :: 4,669
            CDSs (with protein)               :: 4,669
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 241
            CDSs (without protein)            :: 241
            Pseudo Genes (ambiguous residues) :: 0 of 241
            Pseudo Genes (frameshifted)       :: 65 of 241
            Pseudo Genes (incomplete)         :: 178 of 241
            Pseudo Genes (internal stop)      :: 44 of 241
            Pseudo Genes (multiple problems)  :: 45 of 241
            Pseudo Genes (short protein)      :: 4 of 241
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069579.1.
            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..4654
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1250"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1250"
                     /db_xref="taxon:562"
                     /plasmid="unnamed9"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            119..649
                     /locus_tag="I6J80_RS24780"
                     /old_locus_tag="I6J80_24795"
     CDS             119..649
                     /locus_tag="I6J80_RS24780"
                     /old_locus_tag="I6J80_24795"
                     /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            656..889
                     /locus_tag="I6J80_RS24785"
                     /old_locus_tag="I6J80_24800"
     CDS             656..889
                     /locus_tag="I6J80_RS24785"
                     /old_locus_tag="I6J80_24800"
                     /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            1370..2422
                     /locus_tag="I6J80_RS24790"
                     /old_locus_tag="I6J80_24805"
     CDS             1370..2422
                     /locus_tag="I6J80_RS24790"
                     /old_locus_tag="I6J80_24805"
                     /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            2424..3290
                     /locus_tag="I6J80_RS24795"
                     /old_locus_tag="I6J80_24810"
     CDS             2424..3290
                     /locus_tag="I6J80_RS24795"
                     /old_locus_tag="I6J80_24810"
                     /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(4493..>4654)
                     /locus_tag="I6J80_RS24800"
                     /old_locus_tag="I6J80_24815"
     CDS             complement(4493..>4654)
                     /locus_tag="I6J80_RS24800"
                     /old_locus_tag="I6J80_24815"
                     /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_192926811.1"
                     /translation="MARFIRSQTLTLLEKLNELDADEQADICESLHDHADELYRSCLAR
                     FGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4318..4399
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          3674..3861
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
ORIGIN
        1 caggatgtga ttcaggcgct cacagaggcg gggcttgaag tggtcagggt gacgcgaagc
       61 agtatcagca ttgcagaccc gaacggcggg aggaatatca gactgaaagg agcgttttat
      121 gagcaatctt ttacagacgg gcgcggagtt cgagaaaaag ctgaaagaga gagccgaatc
      181 tacagagaaa atgctgaacg acgagttcag gaagctcgaa gaatctgtaa acagggaact
      241 gacctcaaac gaatctttaa tcaggaacgc tatcaacgac catacaacag ccctgaaaga
      301 actgctggag aggtatcaga aaacgaccgt cgatacgatg gacgcgcact ggaaaaccgt
      361 actgaaaatg agcgtgaaac gctggctgtg gctgattatc gtctcagtac tgatgtttgc
      421 cacgaccggg agtctgctgt ggtaccaggg catgaagata aacgcgaata tgaatattct
      481 ccgcgagcag aaagagagtc tggagaagct gaacgcgaag acatggggcg tgcgttatca
      541 cgaggacagc aacggacgtt ttctggtgtt gccgaagggg atgaaagccg aaacgaactg
      601 gacgaaggac aacggcaaac tgaacgcagt gagactggtg caggagtgac agagcatgac
      661 ggagctggaa agacatttgc tgaacgcatt agagcaactg caacaggact atatgcagcg
      721 gctgaacgaa tgggagaacg ccttcgtgga attgcagaaa atgttttcgc ttacgcaacg
      781 ggacaacgcg atgctgaacg ggcgagtcat gcagttgagt cagcaggtgc agcacttgag
      841 cgagcggaca gaacgcttga gccagttata cagcgagaac aggagataag ggatgaacgg
      901 ctgatgcagg aacgcgaaca tgagttatct ctggagcggg agcgtcagcc ggaaatccag
      961 gagcggacac tggatggccc ttcgctggga tggtgaaacc atgaaaaatg acgtgttcag
     1021 tggattaagg cgggctaatg tggcctgtag catctggttg cataggtatt catgcggtta
     1081 aaatttatca ggtgcgatcg cggcagtttt tcgggtggtt tgttgccatt tttacctgtc
     1141 tgctgccgtg atcgcaccga acgcgttttg gcggtgcgcg taatgcgacg ttatggtaaa
     1201 tggagcggat tttcaggaag gagtgatact aacaactcga acactgtgca aataatgatt
     1261 tttttaaaat atcggtaacg ataataaatt atttcgtttt acgccggtaa taaatataat
     1321 gtagtttcag tatataaaaa aatatatgag gtgtcttgtg ggagctttca tgaatcttca
     1381 acaacgtata aataaactac cacaattatc atccagtttt tcatttggaa aagatattga
     1441 taatattcat tcatttatct ttaacgaaac ttctaaagat aaaattgaag atttactaag
     1501 aaaatgggtg tcaggcaatc agccctgtgt atttggtaaa ttggcaagca agaaaattaa
     1561 agggcttgat ttccatttat ctattgtaaa tagcccccaa ctatataatg atgatggtca
     1621 tttgtttgat tttttgcgta atgaaagagt tcgttttaaa gaacgcgcaa gaagaggaga
     1681 ggtcagtgcg catctcattt attttattca tccacaactt gcctttgctc gtccatcaga
     1741 agagttagtg gacatacaaa aatatatttg ttcgctgcat atgccagagt gctatccaat
     1801 aaaagaggat gttatttata ctgaaagcgt accatttcag gataaagatg ggctaaaaat
     1861 atataaggct ggtgttaatg ttttttactc ttctgctcat agaacaagaa atcatgatag
     1921 aagaatacca gggggaatac ttatttctgt aaatgccccg gggcatttta tgaggctggc
     1981 gatagaaaaa ggtttctata aagatcaaga acaagcgtta gcggatattc gtaacatgac
     2041 tattcagtct gttggtaagg gtgggtattc acatccggaa gggatttcta caacatggca
     2101 ttcagaatct aatttggatc gttttggatg cccagtgcac accggtaata gttcttatta
     2161 cagcggtttt tatcatactg atgtattaat tccaggagaa ttaactaagg atgaaagatt
     2221 gctccatgaa atagaaaata gtgatccaat gatcttcaac tggaatgtat tgttttatgt
     2281 ttcattagaa gagtttccta tagatgatcc ttattatgga gagtttattg gtattcctgt
     2341 agatgatgca tctatgtttt ttaactcctt tcaaccaagg aaatttgaaa acaaacccct
     2401 ttatgagaaa gaggatgatt aatatgatta aaggaatgct ttttgctttt ttagcagcgt
     2461 tctcatgggg ggcagctatc gtaatgagca aaaaaggagt tgaagaacta gatgccggag
     2521 gggtgttttt ctggcagatt tgtagtgcag taatactatc ttggatagtt ctttttataa
     2581 aaagaaaaaa actcccatta aactcaaaag cgatacttgc ttatgcgaca ggcgtttttg
     2641 aaccattctt agcgtatact tttacactct acggacttta ttttatttca gcaggaagcg
     2701 catcaattat tttttcactt gaatcagtgt ttatattggt gttgtctgtt cttatttgct
     2761 cagttaaaat taattccccg caatatttta tattgttcct tataggtgca attgttggca
     2821 gtattttggt agccttgcca gacatcagta atggatcgaa taatattgtt ggatattgtc
     2881 ttgttgttgc cggtgtgtta tcggcagcat tttatgttgt tatatcgtct cgccttatta
     2941 aatcgtttga gcctatcaca ttattgagcg gacagttgac attctccctt atactgtcat
     3001 cgctctttat ttttatatct aaatcatcaa tttatcttcc gttggaatcc gtgattattg
     3061 ttttttcatc tggaatatta caatattttt tagctttttg tttttacttg aactccttgc
     3121 gttggctccc agttcatttg gcagggataa tgttgtactt tattccgcta gttgcattat
     3181 ttttgtcatg gttgtttttg gatgaacaat tcacattctt acagggggta ggatttattg
     3241 taactgtgct aagtgtatat tttcttaaca gaaaatactc agaggagtaa cattctgttc
     3301 aggattgccc cccggcctcc atcgataccg tgccaaatgc acgtaaaaaa cgggagcgtt
     3361 tctggtgtcg gaatgtaacc aagggggtca gaggcgcgct aaaacgctct caggggagtc
     3421 aaatagagac gtttgtaaca aaaagatcaa aggatcctct tgagatcctt tttttctgcg
     3481 cgtaatctgc tgcctgtaaa cgaaaaaacc gccttgcagg gcggtttgat cgaaggttaa
     3541 gtcagcttgc agactgctta accaggtaac tgtcttatgc gagacgagtc accaaaattg
     3601 ttcttctagt gtagccgcac tccggcagcc acttcaagta ctctctaaat atctcgcaca
     3661 tgacttttac caatggctgc tgccagtggc gctttgtggt gtcttttccg ggttggaccc
     3721 aagagaacag ttaccggaga aggcgcagca gtcgggctga acggggggtt cctgcataca
     3781 gcccagcccg gagcgaactg cctaagtcgc cccgagatac cagaagacgt gagctatgag
     3841 aaagcgccac gtgtcccgta agggagaaag gcggaaaagg tatccggtaa tcgatatggc
     3901 gggaacgtgg gggcgcagga gggagcgatt caccggaaac ggtgatgatc tttaagccac
     3961 gtcgggtttc gccaccgctg gcggatttca tggttgagcc gcaaggctcc cacagatgca
     4021 ccgaaaaagt gtctgttttg tgaagtccgt caggggggcg gagcctatgg aaaaagcgcc
     4081 tccggcgcgg cctttcccgg ggtttcgttt tttgcgcaca tgttctttcc tggtttatcc
     4141 ccgggttctg tggataacag ggttagcgtt tttgagaaag gagagtccgc tcgccgcagc
     4201 cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aagagcgcct gaactggcat
     4261 tttctcctta cgcatctgtg cggcatttca caccggacat ggcgcacttt tcatacaatc
     4321 cgcactgatg ccgaatggtt aagccagtat acactccgct atcgctacgt gactgggtca
     4381 gggcttcgcc ccgacacccc aaaggtcaac ggcctgacgc gccctggcgg gcttgtctgc
     4441 tcccggcatc cgctcacaga caagctgtga ccgtctccgg gagctgcatg tgtcagcggt
     4501 tttcaccgtc atccccgaag cgtgcgaggc aactgcggta aagctcatcg gcgtggtcgt
     4561 gaagcgattc acagatgtct gcctgttcat ccgcgtccag ttcgttgagc ttctccagca
     4621 gcgttaatgt ctggcttctg ataaagcgcg ccat
//
