LOCUS       NZ_CP069989             3133 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1291 plasmid unnamed9.
ACCESSION   NZ_CP069989
VERSION     NZ_CP069989.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357433
            Assembly: GCF_016903855.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3133)
  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  JOURNAL   Unpublished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 3133)
  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                   :: 1725.19x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:14:06
            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)                     :: 5,142
            CDSs (total)                      :: 5,021
            Genes (coding)                    :: 4,807
            CDSs (with protein)               :: 4,807
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 214
            CDSs (without protein)            :: 214
            Pseudo Genes (ambiguous residues) :: 0 of 214
            Pseudo Genes (frameshifted)       :: 53 of 214
            Pseudo Genes (incomplete)         :: 163 of 214
            Pseudo Genes (internal stop)      :: 38 of 214
            Pseudo Genes (multiple problems)  :: 38 of 214
            Pseudo Genes (short protein)      :: 4 of 214
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069989.1.
            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..3133
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1291"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1291"
                     /db_xref="taxon:562"
                     /plasmid="unnamed9"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(<1..339)
                     /locus_tag="I6K21_RS25355"
                     /old_locus_tag="I6K21_25365"
     CDS             complement(<1..339)
                     /locus_tag="I6K21_RS25355"
                     /old_locus_tag="I6K21_25365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /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_204652624.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICS"
                     /name="DMT family transporter"
     gene            complement(341..1393)
                     /locus_tag="I6K21_RS25360"
                     /old_locus_tag="I6K21_25370"
     CDS             complement(341..1393)
                     /locus_tag="I6K21_RS25360"
                     /old_locus_tag="I6K21_25370"
                     /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            complement(1874..2107)
                     /locus_tag="I6K21_RS25365"
                     /old_locus_tag="I6K21_25375"
     CDS             complement(1874..2107)
                     /locus_tag="I6K21_RS25365"
                     /old_locus_tag="I6K21_25375"
                     /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_000137445.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2114..2644)
                     /locus_tag="I6K21_RS25370"
                     /old_locus_tag="I6K21_25380"
     CDS             complement(2114..2644)
                     /locus_tag="I6K21_RS25370"
                     /old_locus_tag="I6K21_25380"
                     /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            complement(<2685..3089)
                     /locus_tag="I6K21_RS25375"
                     /old_locus_tag="I6K21_25385"
                     /pseudo=""
     CDS             complement(<2685..3089)
                     /locus_tag="I6K21_RS25375"
                     /old_locus_tag="I6K21_25385"
                     /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"
     Typing          complement(1771..3131)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.577"
                     /coverage="87.0"
                     /evalue="0.0"
ORIGIN
        1 tgagcaaata agaacagaca acaccaatat aaacactgat tcaagtgaaa aaataattga
       61 tgcgcttcct gctgaaataa aataaagtcc gtagagtgta aaagtatacg ctaagaatgg
      121 ttcaaaaacg cctgtcgcat aagcaagtat cgcttttgag tttaatggga gtttttttct
      181 ttttataaaa agaactatcc aagatagtat tactgcacta caaatctgcc agaaaaacac
      241 ccctccggca tctagttctt caactccttt tttgctcatt acgatagctg ccccccatga
      301 gaacgctgct aaaaaagcaa aaagcattcc tttaatcata ttaatcatcc tctttctcat
      361 aaaggggttt gttttcaaat ttccttggtt gaaaggagtt aaaaaacata gatgcatcat
      421 ctacaggaat accaataaac tctccataat aaggatcatc tataggaaac tcttctaatg
      481 aaacataaaa caatacattc cagttgaaga tcattggatc actattttct atttcatgga
      541 gcaatctttc atccttagtt aattctcctg gaattaatac atcagtatga taaaaaccgc
      601 tgtaataaga actattaccg gtgtgcactg ggcatccaaa acgatccaaa ttagattctg
      661 aatgccatgt tgtagaaatc ccttccggat gtgaataccc acccttacca acagactgaa
      721 tagtcatgtt acgaatatcc gctaacgctt gttcttgatc tttatagaaa cctttttcta
      781 tcgccagcct cataaaatgc cccggggcat ttacagaaat aagtattccc cctggtattc
      841 ttctatcatg atttcttgtt ctatgagcag aagagtaaaa aacattaaca ccagccttat
      901 atatttttag cccatcttta tcctgaaatg gtacgctttc agtataaata acatcctctt
      961 ttattggata gcactctggc atatgcagcg aacaaatata tttttgtatg tccactaact
     1021 cttctgatgg acgagcaaag gcaagttgtg gatgaataaa ataaatgaga tgcgcactga
     1081 cctctcctct tcttgcgcgt tctttaaaac gaactctttc attacgcaaa aaatcaaaca
     1141 aatgaccatc atcattatat agttgggggc tatttacaat agataaatgg aaatcaagcc
     1201 ctttaatttt cttgcttgcc aatttaccaa atacacaggg ctgattgcct gacacccatt
     1261 ttcttagtaa atcttcaatt ttatctttag aagtttcgtt aaagataaat gaatgaatat
     1321 tatcaatatc ttttccaaat gaaaaactgg atgataattg tggtagttta tttatacgtt
     1381 gttgaagatt catgaaagct cccacaagac acctcatata tttttttata tactgaaact
     1441 acattatatt tattaccggc gtaaaacgaa ataatttatt atcgttaccg atattttaaa
     1501 aaaatcatta tttgcacagt gttcgagttg ttagtatcac tccttcctga aaatccgctc
     1561 catttaccat aacgtcgcat tgtacgcacc gccaaaacgc gttcggtgcg atcacggcag
     1621 cagacaggta aaaatggcaa caaaccaccc gaaaaactgc cgcgatcgca cctgataaat
     1681 tttaaccgca tgaataccta tgcaaccaga tggtacaggc cacattagcc cgccttaatc
     1741 cactgaacct gccatttttc atggtttcac catcccagcg aagggccatc cagtgtccgc
     1801 tcctggattt ccggctgacg ctcccgctcc agagataact catgttcgcg ctcctgtatc
     1861 agccgttcct ctcttatctc cagttctcgc tgtataactg gctcaagcgt tctgtctgct
     1921 cgctcaagtg ctgcacctgc tgactcaact gcatgacccg ctcgttcagc atcgcgttgt
     1981 cccgttgcgt aagcgaaaac atcttctgca attccacgaa ggcgctctcc cattcgctca
     2041 gccgctgcat atagtcctgt tgcagctgct ctaaggcgtt cagcaaatgt gtttccagct
     2101 ccgtcatgct ctgtcactcc tgcaccagtc tcactgcgtt cagtttgccg ttgtccttcg
     2161 tccagttcgt ttcggctttc atccccttcg gcaacaccag aaaacgtccg ttgctgtcct
     2221 cgtgataacg cacgccccat gtcttcgcgt tcagcttctc cagactctct ttctgctcgc
     2281 ggagaatatt catattcgcg tttatcttca tgccctggta ccacagcaga ctcccggtcg
     2341 tggcaaacat cagtactgag acgataatca gccacagcca gcgtttcacg ctcattttca
     2401 gtacggtttt ccagtgcgcg tccatcgtat cgacggtcgt tttctgatac ctctccagca
     2461 gttctttcag ggctgttgta tggtcgttga tagcgttcct gattaaagat tcgtttgagg
     2521 tcagttccct gtttacagat tcttcgagct tcctgaactc gtcgttcagc attttctctg
     2581 tagattcggc tctctctttc agctttttct cgaactccgc gcccgtctgc aaaagattgc
     2641 tcataaaatg ctcctttcag cctgatattc ttcccgccgt tcggatctgc aatgctgata
     2701 ctgcttcgcg tcaccctgac cacttcaagc cccgcctctg tgagcgcctg aatcacatcc
     2761 tgacggcctt ttatctctcc ggcatggtaa agcgcgtcta tcccgcgtgt gacgctctct
     2821 gcaagcgcct gtttcgtttc cggcaggtta tcagggaggg tcagcgtccg gcggttctcc
     2881 ggggcgttgg ggtcatgcag cccgtaatgg tgattcacca gcgtctgcca ggcatcaatt
     2941 ctcggcctgt ctgcccggtc gtagtacggc tggaggcgtt ttccggtctg tagctccatg
     3001 ttcggaatga caaaattcag ctcaagccgt cccttgtcct ggtgctccac ccacaggatg
     3061 ctgtactgat ttttttcgag accgggcatc agtacacgct caaagctcgc catcactttt
     3121 tcacgtcctc ccg
//
