LOCUS       NZ_CP070000             4066 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1300 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP070000
VERSION     NZ_CP070000.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357442
            Assembly: GCF_016903915.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4066)
  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  JOURNAL   Unpublished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 4066)
  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                   :: 1255.12x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:03:37
            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)                     :: 5,439
            CDSs (total)                      :: 5,322
            Genes (coding)                    :: 5,075
            CDSs (with protein)               :: 5,075
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 247
            CDSs (without protein)            :: 247
            Pseudo Genes (ambiguous residues) :: 0 of 247
            Pseudo Genes (frameshifted)       :: 94 of 247
            Pseudo Genes (incomplete)         :: 157 of 247
            Pseudo Genes (internal stop)      :: 46 of 247
            Pseudo Genes (multiple problems)  :: 48 of 247
            Pseudo Genes (short protein)      :: 4 of 247
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070000.1.
            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..4066
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1300"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1300"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(3954..4066,1..2041)
                     /gene="mobQ"
                     /locus_tag="I6K30_RS26730"
                     /old_locus_tag="I6K30_26735"
     CDS             join(3954..4066,1..2041)
                     /gene="mobQ"
                     /locus_tag="I6K30_RS26730"
                     /old_locus_tag="I6K30_26735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001029350.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029350.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPEDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGESGLAALRSQL
                     LKREEELRRKELEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQHPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMEFHLKTREAPLFAVVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHATERRPDRGWSQGM"
                     /name="mobQ"
     gene            complement(2283..2990)
                     /locus_tag="I6K30_RS26735"
                     /old_locus_tag="I6K30_26740"
     CDS             complement(2283..2990)
                     /locus_tag="I6K30_RS26735"
                     /old_locus_tag="I6K30_26740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3521..3775)
                     /gene="mobC"
                     /locus_tag="I6K30_RS26740"
                     /old_locus_tag="I6K30_26745"
     CDS             complement(3521..3775)
                     /gene="mobC"
                     /locus_tag="I6K30_RS26740"
                     /old_locus_tag="I6K30_26745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091749.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          2..246
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.967"
                     /coverage="100.0"
                     /evalue="4.29e-117"
     Typing          complement(3780..3953)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.714"
                     /coverage="98.0"
                     /evalue="1.22e-79"
     Typing          3954..4066
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.614"
                     /coverage="100.0"
                     /evalue="1.02e-43"
     Typing          complement(2284..2990)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.859"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3..2032
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.797"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gactcacgac tacacccgca aaagcggtgt ggctgaggct gtgattctga cccccgcgac
       61 agcccctgcc tggtgtacga accgtgccga actctggaat gccgttgaga aggccgaacg
      121 ccggaagaac tcacaacttg cgcgggaaat tgaactcgct atcccccgtg aactgccgca
      181 ggatgccgca cgggaaaccg ttctcgcctt tgtcagagaa aactttgtca gtcagggcat
      241 gattgctgat gtggcgttcc atcacatgga taaaacaaat ccccatgcgc acatcatgct
      301 gaccacgagg gctgtcggac ctgctgggtt cggcggaaag gtcagggact ggaacgaccg
      361 gacacatgcc gagacgtggc gtgcatcatg ggctgaccat gcaaacaggg cactggcgaa
      421 cgccggttat caggaagaga tagaccatcg ttcatacgag cgacaggggc ttgagaaaac
      481 gcctggtatt cacctcggaa agtctgcctg tgcgatggaa acacgcggta tcgaaacaga
      541 acgcggcgaa cagaatcgtc tgattaacag gcttaacctg gaaatacaga tttcccgcac
      601 cgaactcagg aacagcgggc tgacagagcc tgcccgccgt gtggctgacc ttctgaatat
      661 cgggcttcct gacaacgcaa cttcgtacac actacgtgac atcatcgaag cgttgccgga
      721 ggacagtaac gcggcatgga aactcaccag taacgccatg tcgatgatgg cagatatgca
      781 ggcgacgcgc agacgctggg aagagctgaa caccgaacga aaggaagcga tgagccatgc
      841 tgccagcctg aaaaaatcat cgccgttttc gtccggtttt tcccgtattc ccctgatgca
      901 atgggctgca ccggaatacc gtagtgagca gggaaaaatc cagtctctga gccagcaaat
      961 ggaaaaattg cgacagcatt accggaaggt ggagaaacag gacattcccg cgagtcagac
     1021 ggcatttgaa aaacagtggc agcagtgggg ggaatccggc cttgcagctc tcagatccca
     1081 gttgcttaaa cgtgaagagg aattgcgccg gaaggagctg gaggatacag aacgtagtcg
     1141 cgcggagcag ctcagaaaaa atgacaatgc cgttatggat tcaggggtgc tgagagcagt
     1201 cgttacgggg tatggcgagg ctcccatgcc tggtaacggg gaaatgacct gttaccttct
     1261 gcttcacaac cggaacggag aatatacgct ctgggggaac gagctggaga aataccgcac
     1321 caggatcttt gagagtgttg atttaatgcg tgacaggagt ggttatatct gtgaccgaag
     1381 cgaaatcggt caacatccac cactgcaacg tgtttattcc tctgcgacct ttgagcaact
     1441 tctgacgcag gtttgccaga catggccgca acatacccgc aatctccgcc aaccgaagac
     1501 atggccggag tctttctgtc ttggagaaga ccgccagcca gccatgccat cactggcagc
     1561 aaggaaggtg gattttacgc agggacgtct gccaccgacg ctgatgccgg tcatgagttc
     1621 tgtcgaccgg gaaacccgcc agcttcagct tttgctggtc atgggcgtgg atgactctct
     1681 gggcggtgtt gtccggctta atggtacgct gtatcccgcg tttgccgttc cctcagccga
     1741 taacagccag ctggtcatca gtgcactgac cgataagggg ttacggtatg cagggtatgg
     1801 tgttgccgta aatcacgatg cagacagcca catatcacct gcgccggaac ttatggagtt
     1861 tcatctgaaa acccgtgagg caccgctttt tgctgtcgtc aacacaccag aaaaacagcc
     1921 ggatcatctg ttccgctcgc tgggtttcaa tcgtacctgg gacgaatggc ggcgcgagga
     1981 agatgcacga acacacgcca ccgagaggag acctgatcgc ggttggtcac agggaatgtg
     2041 aacaatattt tgttttgttt aacatcgtgt tatgttcgtc gatgttcatc gacagggatg
     2101 aatgcaagaa gcacactcac atagcgcaaa catagttttg tttttccgcc cccaaaaatt
     2161 gggggttctt tttttgctgc atcagagcgt ttttgacgca acttttcact tcaatagtac
     2221 cttcgcattc ctgacacaag aaaaacgcga cagtgagcgt tttaggtgcc ttaaaatcga
     2281 ttctagatcg tcatcttgat ctgtttgtct tccttgaagc gaaaatgcag ggctacaacc
     2341 gtgcgcccct ttttgatcgt ctcaaccgtt acagccaggt cgcttttttt gttcagttcg
     2401 tcaacacagg gttttattag atccctgttt aacgttttga aatctttata tttaccatca
     2461 agcatcagtg atgatttaaa atcatcgagg gcgataatac gttccccagt actgcggaat
     2521 tgctggagaa tttcgtatat tcttatgcta taacttcttg ataaattaga aatattttta
     2581 atgacgactc tggtgaattg ccccttcaac tgtgtcagat aaggcattac cgcgtcagaa
     2641 aaagtgattt gtgctttccc ctctcccctc gcgtactgtg cccgatactg aatccagcgg
     2701 aactcctcgc gcttctcgtc gtccttgaga atgatcgacc tgtcccacaa acgatcgatc
     2761 gcttcctgta gctgaacctc ggcatttttc cgccccatat cagggaatga atcaaaatat
     2821 tccgcagctg taatggtcat tgtcttttgc aattcaggtg aagctacgtc agtaccggag
     2881 ttaagtcggc ttatgcagag caataagaaa cgctgttctt gtaaagttag cttgtaactg
     2941 gcctcaacca gcgcattgga cttataggct atcagagggt ttgatgtcat tttaaccacc
     3001 aggccaaaaa tgaggtaaaa taaaaaccta tcacctttag cattggtgag caattatatt
     3061 ttcacccccc attttcctgt gaatattacc ttaaatctcc tcacctttac cttaaattac
     3121 ctcacccaag caccttaaat tatatcacct ttaccttaaa ttcccccacc tatgcacgtg
     3181 taacgcattg tttttaatca ggaatttcga ccctaaaaca agtattaaaa acaagatctt
     3241 aaaaacaaga tctaaaaact taacggcgag cctgtggata acttggggtg ctgaaaataa
     3301 aaatcaaata aaaacaatgt attgcaaaaa atcaggattg aaaattccga atacaccccc
     3361 tccaaccctg tggaaatcca gtattcatgc gggttcagcg catatcacct gtcgaaaaac
     3421 cgtgcgtatg tgctcaacct ggcaactgat tcacttccgc ttcctcgccc actcgctcgc
     3481 taacgttcgg tcgctgggct gcggcgagcg gacgatacaa tcactgctct ggcagcgcct
     3541 ccagctcgtt aatcagcggc agtattcgcg tcacatcagc ctgccgtgtc acctctgcct
     3601 tcaggaactg gagtaaccaa gctcgcaact gcacttcctc cggctttctg acctttgcca
     3661 gcaatgctgc acccacaatg accttctgcg ctgtgtccag gctccggctc ttcgccttca
     3721 ggcgctgtaa tctggcctca gcttcggcaa tcttctgttc gagtgttctg ctcatttcgt
     3781 gactccgtgc gcggtgaaaa atcgcatttt agcgcgtcac tagtagttta aaaactgagc
     3841 tggcataatg cacggcaaat cacgaagtgc gcacttatac aatctccact ccgtttcgat
     3901 tgtgtgcgcc ctgcggggct gaaagaaaac tgcaaaaagg cattacggca gaaatggcga
     3961 tttatcatct cagtatgaaa atcatctcca gaagcaacgg ctacagcgcc gttgcttctg
     4021 ctgcctatcg ttctggttca ctaatgcttg atgagcgtac cggact
//
