LOCUS       NZ_CP069457             5251 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1254 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP069457
VERSION     NZ_CP069457.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357396
            Assembly: GCF_016889105.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5251)
  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  JOURNAL   Unpublished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 5251)
  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                   :: 740.26x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:32:33
            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)                     :: 4,781
            CDSs (total)                      :: 4,667
            Genes (coding)                    :: 4,515
            CDSs (with protein)               :: 4,515
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 152
            CDSs (without protein)            :: 152
            Pseudo Genes (ambiguous residues) :: 0 of 152
            Pseudo Genes (frameshifted)       :: 58 of 152
            Pseudo Genes (incomplete)         :: 107 of 152
            Pseudo Genes (internal stop)      :: 26 of 152
            Pseudo Genes (multiple problems)  :: 35 of 152
            Pseudo Genes (short protein)      :: 3 of 152
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069457.1.
            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..5251
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1254"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1254"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(27..347)
                     /locus_tag="I6J84_RS23615"
                     /old_locus_tag="I6J84_23615"
     CDS             complement(27..347)
                     /locus_tag="I6J84_RS23615"
                     /old_locus_tag="I6J84_23615"
                     /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_014386475.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGDD
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            984..1145
                     /locus_tag="I6J84_RS23620"
                     /old_locus_tag="I6J84_23620"
     CDS             984..1145
                     /locus_tag="I6J84_RS23620"
                     /old_locus_tag="I6J84_23620"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023144844.1"
                     /translation="MHEPPVQSDRCAFSGNYHLESNPERHGSSPLAAAIGNGLEEVSLE
                     VLRQLRLN"
                     /name="hypothetical protein"
     gene            complement(1298..1918)
                     /locus_tag="I6J84_RS23625"
                     /old_locus_tag="I6J84_23625"
     CDS             complement(1298..1918)
                     /locus_tag="I6J84_RS23625"
                     /old_locus_tag="I6J84_23625"
                     /inference="COORDINATES: protein motif:HMM:NF025084.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RloB family protein"
                     /protein_id="WP_023312615.1"
                     /translation="MSKKHGNNKKVPQVMYIYCEGEKTEPLYLEAYISDRSKRTLSVFK
                     IPKTRKNTPEQLVDEAIKKKNSSSSAEGDVFWVVYDQEHLTPSSISCHQKAWNKANRHG
                     INIAISCVCFELWLLLHFGFTTKDFSSYDNLMSSSPLKKLITNYDKGSKLTYLAIRERI
                     GTAKDNARKLDIYAKTNYKNTHEPYLFPCYTSFHELLKAIDDF"
                     /name="RloB family protein"
     gene            complement(1911..3266)
                     /locus_tag="I6J84_RS23630"
                     /old_locus_tag="I6J84_23630"
     CDS             complement(1911..3266)
                     /locus_tag="I6J84_RS23630"
                     /old_locus_tag="I6J84_23630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000498067.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_014386473.1"
                     /translation="MFVYLTIENFRSVKEKSTLNLSASGSSNHLTTHIYKNDGMNVGTL
                     MSAGIYGANASGKSNVLMAFEAIKFIATESGDLKEGKRIPCYEPYALSSATNEAPVKFE
                     AEFYSVEGNRFSYEVAFIKNRILFESLDYYPSRVKANLFTRDESDTWETIKFGGHYKGG
                     IKKIPFFPNNSYLAKAGNNAASPDIIKEAYNFFRKGIRHIGLNEKIRISSFGEREDVVN
                     ETAKVLCMVDTGVSGISVREVEAEIPIKMDEEIPQEIKEIIEEDYKYRYMFSHPTDEGG
                     SVSFPMGRESEGTQKLFEIIPLIRSAFNDSMVVIVDELDNSLHPHIADLIVKLFNDPDV
                     NKKGSQLVFSTHNMQLMAPEKMRRDQIWFCEKNKGASSLYSLDDFDKKKIKTTTPYAAW
                     YDEGRFGGVPDINYLKVASFISGDISLVMPDIDVKELSDGFFEEFDGDLSDE"
                     /name="ATP-binding protein"
     gene            complement(3899..4111)
                     /locus_tag="I6J84_RS23635"
                     /old_locus_tag="I6J84_23635"
     CDS             complement(3899..4111)
                     /locus_tag="I6J84_RS23635"
                     /old_locus_tag="I6J84_23635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /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_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4115..4600)
                     /locus_tag="I6J84_RS23640"
                     /old_locus_tag="I6J84_23640"
     CDS             complement(4115..4600)
                     /locus_tag="I6J84_RS23640"
                     /old_locus_tag="I6J84_23640"
                     /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_013631087.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEQSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            complement(<4638..5069)
                     /locus_tag="I6J84_RS23980"
                     /pseudo=""
     CDS             complement(<4638..5069)
                     /locus_tag="I6J84_RS23980"
                     /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(462..634)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.659"
                     /coverage="100.0"
                     /evalue="9.74e-41"
     Typing          581..1094
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.617"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(31..347)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.458"
                     /coverage="100.0"
                     /evalue="7.739999999999999e-60"
     Typing          complement(3784..5249)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.115"
                     /coverage="97.0"
                     /evalue="0.0"
ORIGIN
        1 caccaccgcg cccccggggg tgaaatttaa cgatcatcat cccccccttt ttccagcacc
       61 gcatgccgca gccgctccag tcccgcgtcg attgccatca gtgcggccac aatctgcacc
      121 cggtcatgac cggcaccacc ggcattcact ttccgggcga tctggttcag gttgttcccc
      181 ataccggcaa gctggcgcag cagcgccggc gatatcgacg gcagtctgcc ggcacgcgcc
      241 ggcttctcat cgaggcaggt ctgacgcatc cacgccgcca gctgcttgcc gtcgcaccgc
      301 tcgagcagcc gccggtgttc gtcttccgtc acccacatcg tgagcatctt gttgcgtttg
      361 tctgccagag tagcctcctg ataacaccgg gacgggcggg aaatgtttcc cggtcggcac
      421 ggtgttggac aagccgcagg cgcgtcagtc gcttttagcg ggtttcgggg cgcagccctg
      481 aaccagtcac gtagcgctag cggagtgtat actggcttat tatgttggca tgagtgcggt
      541 aatcaggaaa gtgcttcatg tgacagagga aaatgcagct gcgggcgtaa ggcagaaaat
      601 ggaagttcag aggatatgac gcctcctcgc tcactcagtc gctgccgctc ctgccgttcg
      661 gctgcggcgg gcgttacctg cacacggaga agagcgaagg catatggcat gacaaacggg
      721 gcagaaaaag gatgcgccgc tgccgttttt ccataggctc cgcccccctg acaagcatca
      781 cgaaatctga cgctcaaatc agtggtggcg aaacccgaca ggactataaa gataccaggc
      841 gtttccccct ggtggctccc tcgtgcgctc tcctgttcct gcctttcggt ttaccggtgt
      901 cattccgctg ttatggccgc gtttgtctca ttccacgcct gacactcagt tccgggtagg
      961 cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac cgctgcgcct
     1021 tctccggtaa ctatcatctt gagtccaacc cggaaagaca cggttcatcg ccactggcag
     1081 cagccattgg taacggatta gaggaagtga gtcttgaagt tctgcgccag ttaaggctaa
     1141 actgaaagga caatttttgg tgactgcgct ccctctaagc cagttacccg gtacataagt
     1201 tggtagctca tgtaccttcc aaaaaccacc gttggtagcg gtggttttta tttttcatag
     1261 attacagcct gtaataagcc atggtcaatg gattacttca aaagtcgtca atcgccttaa
     1321 gtagctcatg gaatgatgta taacatggaa atagataagg ttcgtgcgtg tttttataat
     1381 tagttttagc gtaaatatct agctttcttg cgttatcttt cgcagtacca atcctctctc
     1441 ttatagcaag gtaagttagt ttactacctt tatcatagtt agttattaat ttttttagcg
     1501 gggagctaga catcaaatta tcatacgacg aaaaatcttt ggttgtgaag ccgaaatgca
     1561 acaataacca taattcaaaa caaacacagg atattgctat atttatccca tgcctattag
     1621 ctttattcca tgccttttga tgacatgaaa tagacgaagg cgtcagatgc tcttgatcat
     1681 aaacaaccca aaagacgtca ccttctgcgg aagatgatga attctttttc tttatcgcct
     1741 catccaccaa ctgctcaggt gtattttttc ttgttttagg tattttaaat acacttaaag
     1801 ttcttttaga tctgtctgaa atataagcct caaggtataa tggttcggtt ttctcaccct
     1861 cacagtatat atacattact tgtgggactt tcttattatt tccatgtttt ttactcatca
     1921 gaaagatccc cgtcaaactc ttcaaaaaaa ccatcagaca attctttgac gtcaatatcc
     1981 ggcattacca aggatatatc accagatata aatgaggcta cctttaagta gtttatgtcg
     2041 ggaaccccac caaacctacc ctcatcatac caagctgcgt aaggtgttgt tgtttttatc
     2101 tttttcttat caaaatcatc taagctataa agagacgacg cacctttatt tttttcacaa
     2161 aaccatatct gatctcttct cattttctct ggagccatta actgcatatt atgggttgag
     2221 aatacaagtt gtgagccttt tttattgaca tcaggatcat taaataactt aacaatcaag
     2281 tcagcaatat gcgggtgcaa gctattatct aactcatcaa caattacaac catactatca
     2341 ttaaacgcag atctaattag aggtatgatt tcaaataatt tttgggtgcc ttcagactct
     2401 ctccccatag ggaaagaaac actcccccct tcatcagtag gatgagagaa catataacga
     2461 tatttataat cttcttcaat tatctccttt atttcttgag ggatttcctc atccattttt
     2521 attggtattt ccgcctcaac ctcccgtaca gatataccgg aaacaccagt gtcaaccatg
     2581 cataaaacct tggccgtttc atttacgacg tcctccctct ccccaaaaga agatattctt
     2641 atcttttcat ttaaacctat atgtctaatt ccctttctaa aaaagttata agcttcttta
     2701 attatgtctg gtgatgcggc attattacct gctttcgcta agtatgaatt attagggaag
     2761 aatggtattt ttttaatacc tcctttataa tgcccaccaa acttgattgt ttcccaggtg
     2821 tcgctctcat ctctagtaaa taaatttgct ttaaccctag atggataata gtctaatgat
     2881 tcaaataaaa tccgattttt aataaaagca acttcataac tgaaccgatt cccctcaaca
     2941 gaataaaatt cagcctcaaa ctttacagga gcctcattcg tagccgaaga aagagcatat
     3001 ggctcatagc agggaatccg tttaccttct ttcaaatcac cgctttctgt tgcgataaat
     3061 tttatagctt caaaagccat gagaacgtta gatttaccag acgcattagc accataaatc
     3121 ccagcactca tgagcgttcc aacattcatt ccatcatttt tatagatatg agttgttaaa
     3181 tggttactag aaccggatgc gctcaagttt aatgtcgatt tttccttaac cgacctaaaa
     3241 ttttcaatag tcaaataaac aaacatgcat acctcctaac ggggattttt cgccaaaaaa
     3301 gcgaaaaatc aatcatagga aagatatcct atatgtttta attttggaac aacatcttcc
     3361 ttaaaaaacg ttgtgctatt tataattaca cgctatttac cataacatct gttgcccgca
     3421 ccgctccgga caggttcgcc acaaacgggg cggcagtcag gtaaaaccgg caacaaacca
     3481 cccgatacac cgccccgttc gtgacagata aattttaccc ggctgcatgg tcatgcagcc
     3541 agatgcatac ggtctgattt caggccagaa tccggatgaa cgccttaaaa acaggaaaat
     3601 gcttctccag ccagtcccag atctccagcg ccatgtacag gcaattcagc accgtctcaa
     3661 tcacgttaaa cagtctcata atccctccgt tgtatacgct gtgatggaaa catcacgacc
     3721 gtatttagcg ggaaatttat gagcccttct tcttggggtt tgtcactgga tgcgcgcagt
     3781 cagcccagcg tcggaccgtc atagctccgc tgccgggaac gggtttccgc cagctctttt
     3841 tcatgctgtt tctgctcgta tgcccgttcg gcggccaccg ccatttcatg ccgctgcact
     3901 actggctcaa acgctgtaac tgcctgctca agttcgccac ctgctgactc aagcgcgtga
     3961 cgcgctcgtt cagcgccgcg ttctcccgtt gcataagacc agacatcttc tgccattccg
     4021 cgaaggcgct ctcccactcg tccagccttt gcgagtagtc ctgatgtagc tgctctaatg
     4081 cggtcagcaa ctgtttttcc agttccgtca tgggctattt cctctccagt accatccagt
     4141 tcccttcctc cccgtaagct cccgctttcg ggttcacttt gacgcaggac agtttcttct
     4201 ccccgcagag cgacagctgc acgccgtggt tcttctccga cagcatggcc tgcgtccgct
     4261 cctgcgcccg gatagtctgg taattcccgg tgatctgctg cccctgccac cacagaatgc
     4321 tcccgctcgt ggcgatcagc agtaccgaga ccagggtgat ggtcagccac gtccggccga
     4381 ccatacgcag cacgctcagc cggttcgact gcatcgccgc ggtcataccc tgctcgtggg
     4441 cgctgatggc gtcgctgatt ctcttcgcgc ttgcgctcag ttccgctttt acagactgct
     4501 cgtgctcgct gaatgcggct ttcagcatct cgccggtact ctgctgctgc gctttcgatt
     4561 gctgctccaa gtccttcgcc agcgctaaaa gactgctcat aaatggctcc cttcagtcgg
     4621 atgtttcgcc ccccgtccgg gtcggcaatg ctgatactgt tttttgtggt gcggaccacc
     4681 tcaaaacctg ccgctgtgag cgcccctgtg acgtcctcgc gcgttttgag ctccccggat
     4741 gaggctaagg ccagcaaccc acgtgtaatc gcctgagcgg cttccagctt cgtttccggc
     4801 agtgcggacg gcgtgaccag taaccgtcgg ttctccgggg cgtttggatc atgcagcccc
     4861 agcctgccgt tcaccacggt ctgccaggca tcgatgcgcg gccggtcggc gcgatcgtag
     4921 tacggctgca ggcgtttccc ggtcagcagt tcagtgttgg ggatcaggaa attcagctcc
     4981 agccgcccct tgtcggtgtg ctccacccac agaatgctgt actggtcttt atcgagcccg
     5041 ggcatcagaa cccgctcaaa gctggccata atctgctccc gctgcccggg cggcagttca
     5101 gcctccgcga acgacagcac gccggaggtg tactttttcg catacggcga ggcatcgata
     5161 agctcccgga cttcctccgg ttttccctgc agcacggtcg ccccctcgcg ctgccggtct
     5221 tttcccagca ggtaatccac cggaccggca c
//
