LOCUS       NZ_CP070014             4072 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1288 plasmid unnamed7, complete
            sequence.
ACCESSION   NZ_CP070014
VERSION     NZ_CP070014.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357430
            Assembly: GCF_016903935.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  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  JOURNAL   Unpublished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 4072)
  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                   :: 1384.73x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:06:01
            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)                     :: 5,672
            CDSs (total)                      :: 5,545
            Genes (coding)                    :: 5,328
            CDSs (with protein)               :: 5,328
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 217
            CDSs (without protein)            :: 217
            Pseudo Genes (ambiguous residues) :: 0 of 217
            Pseudo Genes (frameshifted)       :: 67 of 217
            Pseudo Genes (incomplete)         :: 153 of 217
            Pseudo Genes (internal stop)      :: 34 of 217
            Pseudo Genes (multiple problems)  :: 36 of 217
            Pseudo Genes (short protein)      :: 4 of 217
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070014.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1288"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1288"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(2963..4072,1..1050)
                     /gene="mobQ"
                     /locus_tag="I6K18_RS28045"
                     /old_locus_tag="I6K18_28045"
     CDS             join(2963..4072,1..1050)
                     /gene="mobQ"
                     /locus_tag="I6K18_RS28045"
                     /old_locus_tag="I6K18_28045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /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_001029353.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(1306..1998)
                     /locus_tag="I6K18_RS28050"
                     /old_locus_tag="I6K18_28050"
     CDS             complement(1306..1998)
                     /locus_tag="I6K18_RS28050"
                     /old_locus_tag="I6K18_28050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(2530..2784)
                     /gene="mobC"
                     /locus_tag="I6K18_RS28055"
                     /old_locus_tag="I6K18_28055"
     CDS             complement(2530..2784)
                     /gene="mobC"
                     /locus_tag="I6K18_RS28055"
                     /old_locus_tag="I6K18_28055"
                     /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_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(2786..2962)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2963..3321
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(1307..1998)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..1047
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.713"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caggacattc ccgcgagtca gacggcattt gaaaaacagt ggcagcagtg gggggcatcc
       61 ggccttgcag ctctcagagt ccagttgctt aaacgtgaag aggaattgcg ccggaaggag
      121 caggaggata cagaacgtag tcgcgcggag cgacgagcgg aacagctcag gaaaaatgac
      181 aatgccgtta tggattcagg ggtactgagc gcagtcgtta cggggtatgg cgaggccccc
      241 atgcctggta acggggaaat gacctgttac cttctgcttc acaaccggaa cggagaatac
      301 acgctctggg ggaacgagct ggagaaatac cgcaccagaa tctttgagcg tgttgattta
      361 atgcgtgaca ggagtggtta tatctgtgac cgaagcgaaa tcggtcaaca tccaccactg
      421 caacgtgttt attcctctgc gacctttgag caacttctga cgcaggtttg ccagacatgg
      481 ccgcaatata cccgcaatct ccgccagccg aagacatggc cggagtcttt ctgtcttgga
      541 gaagaccgcc agccagccat gccatcactg gcagcaagga aggtggattt tacgcaggga
      601 cgtctgctac cgacgctgat gccggtaatg agttctgtcg accgggaaac ccgccagctt
      661 cagcttttgc tggtcatggg cgtggatgac tctctgggcg gtgttgtccg gcttaatggt
      721 acgctgtatc ccgcgtttgc cgttccctca gccgataaca gccagctggt catcagtgca
      781 ctgaccgata aggggttacg gtatgcaggg tatggtgttg ccgtaaatca cgatgcagac
      841 agccacatat cacctgcgcc ggaacttatg gagtttcatc tgaaaacccg tgaggcaccg
      901 ctttttgctg ccgtcaacac accagaaaaa cagccggatc atctgttccg ctctctgggt
      961 ttcaatcgta cctgggatga atggcggcgc gaggaagatg caagaacaca caccaccgag
     1021 aggagacatg atcgcggttg gtcacagtga atgtgaacaa tattttgttt tgtttaacat
     1081 cgtgttatgt tcgtcgatgt tcttctatgt tcatcgacag ggatgaatgc aagaagcaca
     1141 cacataatgc aagcatagtt ttgtttttcc gcccccaaaa attgggggtt cttttttcgc
     1201 tgcattagag cgcttttgac gcaatttttc acttcaatag taccttcgca ctactaacac
     1261 aaaaaaaacg cagcagggag cgttttaggt gccttaaaat cgattttaga tcgtcatctt
     1321 gatctgtttg tcttccttga agcgaaaatg cagggctaca accgtgcgcc cctttttgat
     1381 cgtctcaacc gttacagcca ggtcgctttt tttgttcagt tcgtcaacac agggttttat
     1441 tagtatttta tttaagtctc tgaattgttt gtatttattt tcaatcccta acattgaacg
     1501 aaagtcatta agagcaataa ttctctctcc cgtactgcgg aattgctgga ggaactcgta
     1561 tattcttata ctgtaactac ttgataaacc tgatatgttt tttataacaa cgcgcgtgaa
     1621 ttgccccttc agttgcgtca gataaggcat taccgcgtca gaaaaggtta ttcgagcctt
     1681 ggcctcacct ttagcgtact gtgcccgata ctggatccag cggaactcct cacgcttctc
     1741 gtcattcttg agaatgatcg acctgtccca taaacgatcg atcgcttcct gtaactgaac
     1801 ctcggcattt ttccgcccca tgtcagggaa tgaatcaaaa tattccgcag cggtaatggt
     1861 cattgtcttt tgcaattcag catcagcacc agatttcaat cgactgatac acagcaacag
     1921 aaaacgttgt tcctgtaggg tcaacttgta gctggcctca accaaagcat tcgacttgta
     1981 ggcaatcaag tccgacatac aaagatcccg ttcaaatgtg gtgatgcttt aatgtgcccc
     2041 acaaataaga aatgtggaat attttttttt atatcctcac atttctgtga ataacacctt
     2101 aaattcctcc acctttacct taaattcctc cacctaaaca ccttaaattc ctccaccttt
     2161 accttaaatt cctccacata tacctctata acatattgat tttattaatg aattttgacc
     2221 ctaaaacaag tattaaaaac aagatcttaa aaacaagatc taaaaactta acggcgagcc
     2281 tgtggataac ttggggcgct gaaaacaaaa aaccaataaa aacaatgtgt tgcaagaaag
     2341 cagaattgca agttccgaat actccccttc caaccctgtg gaaatccagt attcatgcgg
     2401 gttcagcgca tatcacctac cgaaaaaccg tgcgtatgtg ctcaacctgg cgacggattc
     2461 acttccgctt cctcgcccac tcgctcgcta acgctcggtc gctggggctg cggcgagcgg
     2521 acgatacaat cactgtcctg gcagcgcctc cagctcgtta atcagcggca gtatgcgcgt
     2581 cacatcagcc tgtcgtgtca cctctgcctt caggaactgg agtaaccagg cacgcaactg
     2641 cacctcctcc ggctttctga cctttgccag caatgctgca cccacaacaa ccttctgcgc
     2701 tgtgtccagg ctccggctct tcgccttcag gcgctgtaat ctcgcctcag catcagcaat
     2761 cttctgttcg agcgttctgc tcatgatgta actccgtgcg cgatgaaaaa tcgcatttta
     2821 gcgcgtcact ggtagtttaa aaactgagct ggcataatgc gcgacaaatc acaaagtgcg
     2881 cacttataca atctccactc cgtttcgatt gtgtgcgccc tgcggggctg aaagaaaact
     2941 acaaaaaggc attacggcag aaatggcgat ttatcatctc agcatgaaaa ttatctccag
     3001 aagcagcggc tacagcgccg tagcttccgc tgcctatcgt tccggttcac tgatgcttga
     3061 tgagcgtacc ggactgactc acgactacac ccgcaaaagc ggtgtggctg aagctgtgat
     3121 tctgaccccc gcgacagccc ctgcctggtg tacgaaccgt gccgaactct ggaatgccgt
     3181 tgagaaggcc gaatgccgga agaactcaca acttgcgcgg gaaattgaac tcgctatccc
     3241 ccgtgaactg ccgcaggatg ccgcacggga aaccgttctc gcctttgtca gagaaaactt
     3301 tgtcagtcag ggcatgattg ctgatgtggc gttccatcac atggataaaa caaatcccca
     3361 tgcgcacatc atgctgacca cgagggctgt cggacctgct gggttcggcg gaaaggtcag
     3421 ggactggaac gaccggacac atgccgagac gtggcgtgca tcatgggctg accatgcaaa
     3481 cagagcactg gcgaacgccg gttatcagga agagatagac catcgttcat acgagcgaca
     3541 ggggcttgag aaaacgcctg gtattcacct cggaaagtct gcctgtgcga tggaaacacg
     3601 cggtatcgaa acagaacgcg gcgaacagaa tcgtctgatt aacaggctta acctggaaat
     3661 acagatttcc cgcactgaac tcaggaacag cgggctgaca gagcctgccc gccgtgtggc
     3721 tgaccttctg aatatcgtgc ttcctgacaa cgcaacttcg tacacactac gtgacatcat
     3781 cgaagcgttg ccgaaggaca gtaatgcggc atggaaactc accagtaatg ccatgtcgat
     3841 gatggcagat atgcaggcga cgcgcagacg ctgggaagag ctgaacaccg aacgaaagga
     3901 agcgatgagc catgctgcca gcctgaaaaa atcatcgccg ttttcgtccg gtttttcccg
     3961 tattcccctg atgcaatggg cggcaccgga ataccgtagc gaacagggaa aaatccagtc
     4021 gctgagccag caaatggaaa aattgcgaca gcattaccgg aaggtggaga aa
//
