LOCUS       NZ_CP069575             4271 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1250 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP069575
VERSION     NZ_CP069575.1
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 4271)
  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  JOURNAL   Unpublished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 4271)
  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
            CP069575.1.
            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..4271
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1250"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1250"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            578..901
                     /locus_tag="I6J80_RS24725"
                     /old_locus_tag="I6J80_24735"
     CDS             578..901
                     /locus_tag="I6J80_RS24725"
                     /old_locus_tag="I6J80_24735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_172902175.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLATWMRQTCLDEKPARTGKLPSI
                     SPALLRQFAGMGNNLNQIARQVNAGAGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAE
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1110..>1544
                     /locus_tag="I6J80_RS25230"
                     /pseudo=""
     CDS             1110..>1544
                     /locus_tag="I6J80_RS25230"
                     /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            1579..2064
                     /locus_tag="I6J80_RS24735"
                     /old_locus_tag="I6J80_24745"
     CDS             1579..2064
                     /locus_tag="I6J80_RS24735"
                     /old_locus_tag="I6J80_24745"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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_141021235.1"
                     /translation="MSSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEQSVRAELSESE
                     KRISAAILDHDRKLFSAMNQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQSQQIL
                     DNYMTIREQKNTEAILSERNSGLQLSTCGEQRRHCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            2068..2277
                     /locus_tag="I6J80_RS24740"
                     /old_locus_tag="I6J80_24750"
     CDS             2068..2277
                     /locus_tag="I6J80_RS24740"
                     /old_locus_tag="I6J80_24750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014538403.1"
                     /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_141021236.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTDLSRQVQSLSEQLRRLS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2632..3030
                     /locus_tag="I6J80_RS24745"
                     /old_locus_tag="I6J80_24755"
     CDS             2632..3030
                     /locus_tag="I6J80_RS24745"
                     /old_locus_tag="I6J80_24755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013813374.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="VOC family protein"
                     /protein_id="WP_077070008.1"
                     /translation="MLTGLNHITIAVSDVSNSFNFYVNTLGFSPRARWSRGAYLSLGEL
                     WLCLSADVPIPAQDYTHYAFSIPSHKFDDFVEKLKSAGLVEWKVNKSEGRSVYFLDLDG
                     HKLEVHDGDLDSRLRECMIHPYEKMEFF"
                     /name="VOC family protein"
     gene            complement(3209..3757)
                     /locus_tag="I6J80_RS24750"
                     /old_locus_tag="I6J80_24760"
     CDS             complement(3209..3757)
                     /locus_tag="I6J80_RS24750"
                     /old_locus_tag="I6J80_24760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004744690.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system PemK/MazF family
                     toxin"
                     /protein_id="WP_077070009.1"
                     /translation="MAILRINGNVKIGHIYECNFGMFKKDEAPQAGQAQLVTKDKNEAA
                     TDDYNYRIPNEMIKKRPIVVIGKHKGQYIVVPISSTKETDKKPAKTPENVGFHILLQPG
                     DMPVTARYVEEKERWAKSNLLMTIDGSRLTDIYDKGANQFVAAHKISDDTLLKIRHGVI
                     ISIGLRDILPQQPVEAPAE"
                     /name="type II toxin-antitoxin system PemK/MazF family
                     toxin"
     ARG             2633..3030
                     /name="FosA8"
                     /gene="FosA8"
                     /gene_name="fosfomycin thiol transferase"
                     /tool="rgi"
                     /drug_class="phosphonic acid antibiotic"
                     /identity="52.94"
                     /coverage="93.62"
     Typing          291..469
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.153"
                     /coverage="83.0"
                     /evalue="3.53e-41"
     Typing          complement(2..308)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.5"
                     /coverage="91.0"
                     /evalue="1.41e-93"
     Typing          complement(3882..4267)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="82.759"
                     /coverage="98.0"
                     /evalue="3.12e-90"
     Typing          892..2387
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="87.976"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcggccataa cagcggaatg acaccggtaa accgaaaggc aggaacagga gagcgcacga
       61 gggagctacc agggggaaac gcctgggatc tttatagtcc tgtcgggttt cgccaccact
      121 gatttgagcg tcaggttttg tgatgctcgt caggggggcg gagcctatgg aaaaacggca
      181 tcgccgtatc cttttcctgt tctctccgac ctccgaccca tctctttccc ccctcctctg
      241 tgagcaggta acgcccgccg cagtctcacg gcaagagcgt agcgaccgag tgagcgagga
      301 ggcgtcattt catcctttct tgtattttct acctacgcat ttttgctgca tttccccctg
      361 tcacatgacg cactttcctg aatcaccaac tcgaactaac ataggaagcc agtatacact
      421 ccgctagcgc tacgtgactg gttcagggct gcgccccgaa accggctaaa agcgactgac
      481 gcgcctgcgg cttgtccaac accgcaccga ccgggaaaag atttcccgtc cgccttggcg
      541 ttatcaggag gccagattgg cagacaaacg cagcaaaatg ctcacaatgt gggtgactga
      601 agatgagcac cgtcgtttgc tagaacgctg tgacggaaaa caacttgcta cttggatgcg
      661 gcagacgtgt ctggatgaga aacccgcccg cactggcaaa cttccttcga tttcaccggc
      721 tttgcttcgt cagtttgctg gcatgggtaa caaccttaat cagatcgccc ggcaggttaa
      781 cgccggtgca ggcagcggac atgaccgtgt gcaggttgtc gctgcgctga tggccattga
      841 tgccggactg gagcggctac ggcacgccgt attggagaag ggtgctgagg atgatcgtta
      901 agttccatcc tcgaggcagt ggcggtggcg ccggtccggt ggattatcta ctgggcaaag
      961 accggcagcg taacggtgcc accgttctac agggaaaacc ggaggaaatc cgggagctta
     1021 tcgatgcctc cccgtatgcc aaaaagtaca cctctggtgt cctgtccttc gccgaacagg
     1081 acttagtgcc cggccagcgt gaagaactga tggcgagctt cgagcgggtt ctgatgcccg
     1141 gactcgataa agaccagtac agcgtgttgt gggttgagca ccaggacaaa gggcggctgg
     1201 agctgaactt cctgatcccg aatacggagc tgctgaccgg cagacgactc cagccgtatt
     1261 acgaccgtgc cgatcgtccg cgcattgatg cctggcagac tatcgtgaac ggcaggctgg
     1321 ggctgcacga cccgaatgct ccggagaatc ggcgagcgct ggtcacgcca tctgcgttgc
     1381 cggaagcgaa gcaggaagcc gctcaagcga ttacgcgagg tttactgtcc ttagcttcgt
     1441 ccggggagct gaaaacgcgt caggacgtta ctgagacgct ggaaaacgca ggttttgagg
     1501 tggtacgcac cacaaaaagc agtatcagca ttgccgaccc agacgggggg cgaaatatcc
     1561 gactgaaggg agccatctat gagcagtctt ttaacgctgg cgaaggactt agagcagaaa
     1621 tcgaaagcgc agcagcagag taccggcgag atgctgaaag tcgcattcag cgagcacgag
     1681 caatctgtca gagcggaatt gagcgaaagc gagaagagaa tcagcgccgc catcctcgac
     1741 cacgaccgga aactgttctc agccatgaat cagcgtacga aagggatgct gcgcatggtc
     1801 agccagacgt ggctgaccat cgtcctcgtt tccgcgctcc tgatagcctc gagcgcaggc
     1861 attctgtggt ggcagagtca gcagatactc gacaattaca tgaccatccg ggagcagaag
     1921 aacacggagg ccatactctc agagaggaac agcggcctgc aactctcgac ctgtggagag
     1981 cagagacgcc actgcgtgag ggtgaacccg gaagcgggac ggttcggaga ggattcgagc
     2041 tggatgatac tggcggggaa atagcacatg acagagctgg aaaaacagtt gttgagcgca
     2101 ttagagcagc tacagcagga ctactcgaaa aggctggacg agtgggagaa cgccttcgcg
     2161 gaatggcgga cgatgtctgg tcttatgcaa cgggagaacg cggcgttgag cgagcgcgtc
     2221 acggacttga gcaggcaggt gcagagtttg agcgagcagc tacgccggtt gtcgtaaagc
     2281 tgaacagtat tgaggctctt cgggagcagg agcgcatgga gcagcacgag aaggagttgg
     2341 agcttgaacg ctctcagcgt cagcagacgt atgagggacc gtcgctgtga taaaccggag
     2401 aaaacagcga tttcagggcg gatttgttct gaaatcatgc gtcagtcgtt cgggtgcata
     2461 acgattcatc gcctgtgaaa tcacaggagc gatcctgggc ggttttcagg gggtaagacg
     2521 gagtgtttta tgactttggc ctcaggatcg ctctgaggcc gtttgagcgg tgcgcgtaag
     2581 gggtgttatg gtaaataaga gtgaatggca catagataac gaggtcagga aatgctgaca
     2641 ggtctgaatc atataaccat tgctgttagt gatgtatcaa acagcttcaa tttttacgta
     2701 aacacgcttg gcttctcacc gagagcaaga tggagtcgtg gggcttatct ttccctgggt
     2761 gagctttggc tatgcctttc tgctgatgtg cccatacctg cgcaggacta tacacattac
     2821 gcatttagca tcccttccca taaattcgat gattttgttg agaagctgaa atcggctgga
     2881 ttagtcgaat ggaaagttaa caagagtgag ggaaggtctg tttacttttt ggatctagat
     2941 ggacacaagc tggaagtgca tgatggggat ttagatagcc gactaagaga gtgtatgatt
     3001 catccatatg aaaaaatgga gtttttctaa tacttacctg tggggcgcaa cacggatgtt
     3061 atgttcaatt ttttaggatt gatgaaagtg aaaaggccca gtcattgact gggccttttc
     3121 taaaacttgc cttgcggcta aaaaatctaa cttgccttgc ggctacagga taatagtact
     3181 gtattactca aaaacgagca accagatttt actctgctgg cgcttctacc ggttgctgag
     3241 gcagtatgtc tcgaaggcca atgctgataa ttacaccgtg cctaattttt agcagcgtat
     3301 cgtcagatat tttatgtgcc gctacaaatt gatttgctcc tttatcataa atatcggtca
     3361 ggcggctgcc atctatagtc attaataaat tactttttgc ccaccgctct ttttcctcga
     3421 catatcttgc agtgaccggc atatcgccag gttgcagaag aatgtgaaaa ccgacatttt
     3481 ctggggtttt ggcaggtttt ttatcagttt cttttgtact actaatagga accacaatgt
     3541 actgaccttt atgctttcct ataactacta tcggacgctt ttttatcatc tcgttcggta
     3601 tccgatagtt gtagtcgtca gtagcagcct cgtttttatc cttcgttacc agctgagctt
     3661 gtcctgcttg tggggcttca tcttttttga acatgccgaa attacattcg taaatgtggc
     3721 ctatttttac gtttccattt atgcgcaaga ttgccatgtg atatgcctgc tttttaattt
     3781 attgatttaa tttagaaata tgtcttttta ttagtgtggt acctatgttc accttaataa
     3841 aaagataaat cttacatgca ttcaataatg gcgatagccg gatcttcttg agatccatca
     3901 tcttccgtcg tagtctcttg tcccagaaac gaaaaaacca cctggggagg tggtttttcg
     3961 aaggttcagt aagttgggga acttctgaac cgtggtaaca gggtgtacaa gaccgctgcc
     4021 accaaattct tcctttcagt ttagccgtag tttggctctg acttcaagaa ctctgcatca
     4081 gtaatctctt gtacaccctc taccaatggc tgctgccagt ggcgcttttg catacctttc
     4141 cgggttggac tcaagatgat agttaccgga taaggtgcag cagtcggact gaacgggggg
     4201 ttcgtgcata cagtccagct tggagcgaac tgcctacccg gaactgagtg tcaggcgtgg
     4261 aatgagaaac c
//
