LOCUS       CP077220                3743 bp    DNA     linear   BCT 28-JUN-2021
DEFINITION  Escherichia coli strain FDAARGOS_1379 plasmid unnamed5.
ACCESSION   CP077220
VERSION     CP077220.1
DBLINK      BioProject: PRJNA231221
            BioSample: SAMN16357521
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3743)
  AUTHORS   Walk,S., Carlson,P., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J.,
            Ott,S., Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J.,
            Nadendla,S. and Yan,Y.
  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  JOURNAL   Unpublished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 3743)
  AUTHORS   Walk,S., Carlson,P., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J.,
            Ott,S., Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J.,
            Nadendla,S. and Yan,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-JUN-2021) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, White
            Oak, MD 20903, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 9.0.0, HGAP v. 4.0, SPAdes v. 3.14.1
            Genome Coverage                   :: 972.28x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/21/2021 16:24:16
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,883
            CDSs (total)                      :: 4,761
            Genes (coding)                    :: 4,617
            CDSs (with protein)               :: 4,617
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 144
            CDSs (without protein)            :: 144
            Pseudo Genes (ambiguous residues) :: 0 of 144
            Pseudo Genes (frameshifted)       :: 64 of 144
            Pseudo Genes (incomplete)         :: 71 of 144
            Pseudo Genes (internal stop)      :: 39 of 144
            Pseudo Genes (multiple problems)  :: 25 of 144
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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..3743
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1379"
                     /isolation_source="Seth Lab isolate"
                     /host="Seth Lab strain"
                     /culture_collection="FDA:FDAARGOS_1379"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: MT"
                     /collected_by="Montana State U"
     gene            complement(393..1541)
                     /locus_tag="I6L09_24400"
     CDS             complement(393..1541)
                     /locus_tag="I6L09_24400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003801590.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="QXA01362.1"
                     /translation="MRSLEIFSGAGGLAKGLELAGFQHVGFVELNKHACDSLRLNFDEE
                     KVFQGDIKNYDLSSLDKIDIVAGGPPCQPFSLGGKHKAHDDSRDMFPFAIKAIEVLQPK
                     AFIFENVKGLLRKSFADYFEYIILRLTYPCLSLSNVSDWRIHLDVLRKARKDKHCGCTY
                     DVSFKLINAADYGVPQIRERVIIVGVRSDLNKKWSFPSVTHTQEKLLWEQHVTGDYWRK
                     HNIDAVIDKGISERLMKRFGIFPPSGKSWVTVRDALKNVPQPYESHGIGDHIFKDGARV
                     YPGHTGSYIDLPSKTLKAGAHGVPGGENMIRYEDGTVRYFTVYEGKLLQTFPREFLIAG
                     AWGEAMRQIGNAVPVLLAQKIGQQLYNLLNEEVEPLLCSNFN"
                     /name="DNA cytosine methyltransferase"
     gene            complement(1541..2185)
                     /locus_tag="I6L09_24405"
     CDS             complement(1541..2185)
                     /locus_tag="I6L09_24405"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529705.1"
                     /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="QXA01363.1"
                     /translation="MHNKKFDRSEHVYRNDSFLELIKDAVRFFSGTPVHSLPPPERFQG
                     AGVYALYYTGHYSLYDEYSRINRLAYNLPIYVGKAVPAGWRQSRISDHETRAGSELSNR
                     IREHGRNIAKTSNLDLCDFSCRFVIFEATGSDMISTVEAALIKIYKPLWNTVVDGFGNH
                     TPGAGRFAQAKSDWDVIHPGREWAEKCTGVHSEPYFIEERIKQYFSKSNFT"
                     /name="Eco29kI family restriction endonuclease"
     gene            3037..3231
                     /locus_tag="I6L09_24410"
     CDS             3037..3231
                     /locus_tag="I6L09_24410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="QXA01364.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3527..>3743)
                     /locus_tag="I6L09_24415"
     CDS             complement(3527..>3743)
                     /locus_tag="I6L09_24415"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=2
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QXA01365.1"
                     /translation="SFQGETPGIFIVLSGFATSDLSVDFCDARQGGGAYGKTPASLASS
                     GALLFAHMFFPALSLDSVDNCITAFE"
                     /name="hypothetical protein"
     Typing          complement(2523..2778)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="89.0"
                     /evalue="1.21e-116"
     Typing          complement(2903..3001)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(3305..3389)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.837"
                     /coverage="100.0"
                     /evalue="1.41e-35"
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 gcgaaaaccg gaaaaatgcg tcaggatcgc tttcagctca
     2401 ctgcatagct atgcatgaaa gtgaatggcg atcggtttgg gcgcatacgg tgcccatgag
     2461 acacattttc ggacattttc agttcgtgaa tccctgactc attgctacat atctgaacag
     2521 acacccctag cagcgccccc aggggcgtcc tgtaaaaaaa cacaccgcgc cgctagcagc
     2581 acccctaata taaaatgatg ttttttatga aaatagtcag taccacccct aaaaagcggt
     2641 gttggcgcag ctacaacacc gcgccgacac cgctttttta aatatcacaa agagagcaag
     2701 aagaactaat ttgtcataac tctctattta taaagaaaaa tcagcaaaaa attgtttttg
     2761 cgtggggtgt gggcatttca ggcatgagaa cagactcgcg tttttccgga gtatcagcgg
     2821 aattattgat taagaaacac tcgacgcaga gcgaaatttt atgcaacagc ggctgcactg
     2881 cacagggatt atttatcagt tgatatgctg tgccatgata cgtcctaaaa aaacaggaca
     2941 ggatgtgcaa ttgtaatacc gtcgcccgca acgtcttaca attaccacct ggtcagggtc
     3001 cacccgacac ccggtactga cggagaacaa cggaaggtga acaaacagca acaaactgcg
     3061 ctgaatatgg cgcgatttat caaaagccag agcctgacac tgcttgaaaa actggatgct
     3121 ctggatgccg acgaacaggc ggccatgtgc gaacgactgc acgaactcgc ggaagaactc
     3181 cagaacagca tccaggttcg ctttgagacc gaaagtgaaa caggaacata acgaagctga
     3241 cggaggcgct cacggcttgt ccgcgagcgt tttcggcagc agacaagccc gccagggcgc
     3301 gtcagcgggt gtcggggcga agccctgacc cagtcacgta gcgatagcgg agtgtatact
     3361 ggcttaacta tgcggcatca gtgcggattg taagaaaaca gcgccatatg cggtgtgaaa
     3421 tgctgcacag atgcgtaagg agaaaatgca gcttccggcg ctcttccgct tcctcgctca
     3481 ctgactcgct acgctcggtc gttcggctgc ggcgagcggt gtctgctcac tcaaaagcag
     3541 tgatacagtt atccacagaa tcaagggata aagccggaaa gaacatgtga gcaaaaagca
     3601 aagcaccgga agaagccagc gacgcaggcg tttttccata ggctccgccc ccctgacgag
     3661 catcacaaaa atcgacgctc aagtcagagg tggcgaaacc cgacaggact ataaagatac
     3721 caggcgtttc cccctggaag ctc
//
