LOCUS       NZ_CP069463             2365 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1249 plasmid unnamed4.
ACCESSION   NZ_CP069463
VERSION     NZ_CP069463.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357391
            Assembly: GCF_016889125.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2365)
  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  JOURNAL   Unpublished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 2365)
  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                   :: 864.31x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 04:58:46
            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)                     :: 5,157
            CDSs (total)                      :: 5,036
            Genes (coding)                    :: 4,746
            CDSs (with protein)               :: 4,746
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 290
            CDSs (without protein)            :: 290
            Pseudo Genes (ambiguous residues) :: 0 of 290
            Pseudo Genes (frameshifted)       :: 76 of 290
            Pseudo Genes (incomplete)         :: 208 of 290
            Pseudo Genes (internal stop)      :: 41 of 290
            Pseudo Genes (multiple problems)  :: 34 of 290
            Pseudo Genes (short protein)      :: 4 of 290
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069463.1.
            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..2365
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1249"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1249"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(393..1541)
                     /locus_tag="I6J79_RS25270"
                     /old_locus_tag="I6J79_25270"
     CDS             complement(393..1541)
                     /locus_tag="I6J79_RS25270"
                     /old_locus_tag="I6J79_25270"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003801590.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [Evidence
                     IEA]"
                     /GO_process="GO:0006304 - DNA modification [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_001529706.1"
                     /translation="MRSLEIFSGAGGLAKGLELAGFQHVGFVELNKHACDSLRLNFDEE
                     KVFQGDIKNYDLSSLDKIDIVAGGPPCQPFSLGGKHKAHDDSRDMFPFAIKAIEVLQPK
                     AFIFENVKGLLRKSFADYFEYIILRLTYPCLSLSNVSDWRIHLDVLRKARKDKHCGCTY
                     DVSFKLINAADYGVPQIRERVIIVGVRSDLNKKWSFPSVTHTQEKLLWEQHVTGDYWRK
                     HNIDAVIDKGISERLMKRFGIFPPSGKSWVTVRDALKNVPQPYESHGIGDHIFKDGARV
                     YPGHTGSYIDLPSKTLKAGAHGVPGGENMIRYEDGTVRYFTVYEGKLLQTFPREFLIAG
                     AWGEAMRQIGNAVPVLLAQKIGQQLYNLLNEEVEPLLCSNFN"
                     /name="DNA cytosine methyltransferase"
     gene            complement(1541..2185)
                     /locus_tag="I6J79_RS25275"
                     /old_locus_tag="I6J79_25275"
     CDS             complement(1541..2185)
                     /locus_tag="I6J79_RS25275"
                     /old_locus_tag="I6J79_25275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529705.1"
                     /GO_function="GO:0004518 - nuclease activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Eco29kI family restriction endonuclease"
                     /protein_id="WP_001529705.1"
                     /translation="MHNKKFDRSEHVYRNDSFLELIKDAVRFFSGTPVHSLPPPERFQG
                     AGVYALYYTGHYSLYDEYSRINRLAYNLPIYVGKAVPAGWRQSRISDHETRAGSELSNR
                     IREHGRNIAKTSNLDLCDFSCRFVIFEATGSDMISTVEAALIKIYKPLWNTVVDGFGNH
                     TPGAGRFAQAKSDWDVIHPGREWAEKCTGVHSEPYFIEERIKQYFSKSNFT"
                     /name="Eco29kI family restriction endonuclease"
ORIGIN
        1 gcacgaaccc cccgttcagc ccgaccgctg cgccttatcc ggtaactatc gtcttgagtc
       61 caacccggta agacacgcct taacgccact ggcagcagcc attggtaact ggacaaggtg
      121 gattgagata ttaagagttc ttgaagtggt ggcctaactg aggctacact agaaggacag
      181 tatttggtat ctgcgctcca ccaagccagt taccttcggg aaaaagagtt ggtagctctt
      241 gattccggca aacgaaccac cgttggtagc ggtggttttt ttgtttacag gcagcagatt
      301 acgcgcagaa aaaaaggatc tcaagaagat cctttgatct ttttttgcaa attgcctcta
      361 tggctgtatc accaccatag agacacaaac ttttaattga agttagagca caataacggc
      421 tcaacctctt cattcaataa gttatacaat tgctgcccta tcttctgagc tagcaacaca
      481 ggaactgcat taccaatctg cctcatagcc tccccccaag ctcctgcaat cagaaactct
      541 cgaggaaaag tctgaagaag cttcccttca taaaccgtaa aataacgaac agtcccatcc
      601 tcatacctaa tcatattttc acctccaggt acgccatgag cgccagcctt aagtgttttt
      661 gaaggcaaat cgatataact tccagtatga ccaggataaa ctcgagcgcc atctttaaag
      721 atatgatctc caataccatg tgactcatac ggttgaggaa cattctttaa tgcgtcccta
      781 acagtaaccc agcttttccc cgatgggggg aaaataccaa aacgtttcat taaacgctca
      841 gaaatacctt tatctataac cgcatcaata ttatgctttc gccaatagtc accagtaaca
      901 tgctgttccc acagcaattt ttcttgagta tgcgttacac ttggaaaaga ccatttttta
      961 ttcaaatcac ttcgaacacc aacaattatg acccgttccc taatttgtgg aactccataa
     1021 tcagctgcat tgattaattt aaaactgaca tcatatgtac acccacagtg tttatccttg
     1081 cgagcttttc ttaatacatc tagatgtatt ctccaatcac ttacattact taacgataaa
     1141 caaggataag tcaaacgaag aattatgtat tcaaaatagt ccgcaaatga ttttctaagc
     1201 aaccctttaa cattttcaaa aataaaagct tttggttgca atacttcaat tgcttttatt
     1261 gcaaatggaa acatatccct agagtcatca tgagctttat gttttccgcc caatgaaaat
     1321 ggttggcaag gaggcccgcc agcaacaata tctattttat ctagagatga aaggtcataa
     1381 tttttaatat ctccctgaaa taccttctcc tcatcaaaat taagtcgcaa agaatcacat
     1441 gcatgcttgt ttaactcaac aaatcctaca tgctgaaatc ctgccaactc tagaccttta
     1501 gccaagccgc cggctcctga aaaaatctct aatgatctca ttatgtaaaa ttactcttag
     1561 aaaaatactg tttaattctc tcctcaataa agtatggctc agaatgaaca cctgtacatt
     1621 tctcagccca ctccctgcca ggatgtatta catcccaatc agatttagct tgcgcaaatc
     1681 gcccggcacc aggggtatga tttccaaagc catcaacaac ggtattccac aaaggcttat
     1741 aaattttaat aagagcggcc tcaactgtac taatcatatc agaccccgta gcctcaaaga
     1801 taacaaagcg acatgaaaaa tcacacaaat ctagattcga tgtttttgct atatttcggc
     1861 catgttctct aattctatta gatagttcag aaccagccct agtttcatga tcactaattc
     1921 tagactgacg ccaaccagca ggaacagcct tgccaacata aataggaagg ttatatgcca
     1981 acctatttat acgagaatat tcatcatata atgaataatg tcctgtatag taaagagcat
     2041 acaccccagc accttgaaac cgttccggtg gtggtaatga atgaacaggc gtaccactaa
     2101 aaaaacgaac ggcatctttt attaactcta ggaaagagtc atttctataa acatgctcag
     2161 atctatcaaa tttcttattg tgcattatgt tttccgaaag gtctttatat taacactcct
     2221 actcaacatc acctatgata cgatcataaa gctaataccc caacccatac gcatttacca
     2281 taacgtctca ttacgcgcac cgctaaaacg cgctgaacgc gattctgccg cgaacaccgc
     2341 aaaaagagat gttttaccaa gcgaa
//
