LOCUS       NZ_CP069503             4072 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1268 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP069503
VERSION     NZ_CP069503.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357410
            Assembly: GCF_016889605.1
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  JOURNAL   Unpublished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, SPAdes v. 3.14.1
            Genome Coverage                   :: 905.93x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 04:50:40
            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)                     :: 4,825
            CDSs (total)                      :: 4,706
            Genes (coding)                    :: 4,607
            CDSs (with protein)               :: 4,607
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 99
            CDSs (without protein)            :: 99
            Pseudo Genes (ambiguous residues) :: 0 of 99
            Pseudo Genes (frameshifted)       :: 41 of 99
            Pseudo Genes (incomplete)         :: 64 of 99
            Pseudo Genes (internal stop)      :: 21 of 99
            Pseudo Genes (multiple problems)  :: 24 of 99
            Pseudo Genes (short protein)      :: 4 of 99
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069503.1.
            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_1268"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1268"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(2287..4072,1..362))
                     /gene="mobQ"
                     /locus_tag="I6J98_RS23825"
                     /old_locus_tag="I6J98_23820"
     CDS             complement(join(2287..4072,1..362))
                     /gene="mobQ"
                     /locus_tag="I6J98_RS23825"
                     /old_locus_tag="I6J98_23820"
                     /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_204088940.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREVPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            541..795
                     /gene="mobC"
                     /locus_tag="I6J98_RS23830"
                     /old_locus_tag="I6J98_23825"
     CDS             541..795
                     /gene="mobC"
                     /locus_tag="I6J98_RS23830"
                     /old_locus_tag="I6J98_23825"
                     /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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            1329..2030
                     /locus_tag="I6J98_RS23835"
                     /old_locus_tag="I6J98_23830"
     CDS             1329..2030
                     /locus_tag="I6J98_RS23835"
                     /old_locus_tag="I6J98_23830"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(5..363)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          364..540
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1330..2030
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.858"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2291..4071)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.652"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcagcaatca tgccctgact gacaaagttt tctctgacaa aggcgagaac ggtttcccgt
       61 gcggcatcct gcggcagttc gtgggggatg gcgagttcaa tttcccgcgc aagttgtgag
      121 ttcttccggc gttcggcctt ctcaacggca ttccagagtt cggcacggtt cgtacaccag
      181 gcaggggcgg tggcgggggt cagaatcaca gcctcagcca caccgctttt gcgggtgtag
      241 tcgtgagtca gtccggtacg ctcatcaagc atcagtgaac cggaacgata ggcagcggaa
      301 gctacggcgc tgtagccgct gcttctggag ataattttca tgctgagatg ataaatcgcc
      361 atttctgccg taatgccttt ttgtagtttt ctttcagccc cgcagggcgc acacaatcga
      421 aacggagtgg agattgtata agtgcgcact tcgtgatttg ccgtgcatta tgccagctca
      481 gtttttaaac taccagtgac gcgctaaaat gcgatttttc atcgcgcacg gagttacatc
      541 atgagcagaa cgctcgaaca gaagattgct gatgctgagg cgagattaca gcgcctgaag
      601 gcgaagagcc ggagcctgga cacagcgcag aaggttgttg tgggtgctgc attgctggca
      661 aaggtcagaa agccggaaga ggtgcagttg cgtgcctggt tactccagtt cctgaaggca
      721 gaggtgacac gacaggctga tgtgacgcgc atactgccgc tgattaacga gctggaggcg
      781 ctgccagaac agtgattgta tcgtccgctc gccgcagccc cagcgaccga gcgttagcga
      841 gcgagtgggc gaggaagcgg aagtgaatca gtcgccaggt tgagcacata cgcacggttt
      901 ttcggcaggt gatatgcgct gaacccgcat gaatactggg tttccacagg gttggagggg
      961 gtgtattcga aacttgcaat tctgctttat tgcaacgcat tgtttttatt ggttttttgt
     1021 tttcagcacc ccaagttatc cacaggctcg ccgttaagtt tttaagatct tatttttaga
     1081 tctttttttt taaaaccttt ttaggtcttg taacaccatg attttaaaga tgttctggca
     1141 agataagtgg agcttttggg ggtgaaaggt ggagcttttg ggggtgaaag gtggagcttt
     1201 tgggggtgaa aggtggagct tttgggggtg taatccacag aaaaaggggg ttgcaaaaaa
     1261 aaaacttcca cccatatgat aagtggcgta cagtaaaaaa acgccaccaa tagcaacgag
     1321 caagcgaaat gtcagatctg atagcttaca aatcaaacgc ccttatcgag gcaagctaca
     1381 agctcacttt gcaggaacag cgcttcctgc tggtctgtat cagccgcctg aaatccggag
     1441 aagattcccc ttcgccggat gaacaaaaaa ccatgaccat cacggctgca gagtttcatg
     1501 atgcctttcc tgacatggga cggcagcacg ctgaagctag gctcaaggaa gcgatagatc
     1561 gcctctggga caggtcagta atcatcaaga acgaggaaaa acgagaagag ttccgctggg
     1621 tgcagtaccg ggcgcagtat ttcaaaggtg aggcgaaagt agatatcacc ttctccgatg
     1681 ccatcatgcc gtatctgaca cagctcaagg ggcagtttac gcgggtagtc gtgaagaacg
     1741 tctccagcct ttccagcacc tacagcatcc gcatttacga gctgctccag cagttccgca
     1801 gcaccggtga cagaacgata gctatcgatg atttccgaac catgcttgcc gttgaagata
     1861 aatatcaaca attcaaagac ttgaataaga tgataatcaa gccagccatc gccgaactga
     1921 acgaaaaaag cgatctggtt gtaactgttg agacgatcaa aaaggggcgc acggttgtag
     1981 ccctgcattt tcgcttcaag gaagacaaac agatcaagat gacgatctaa aatcgatttt
     2041 aaggcaccta aaacgctccc tgctgcgttt tttttgtgtt agtagtgcga aggtactatt
     2101 gaagtgaaaa attgcgtcaa aaacgctctg atgcagcgaa aaaagacccc caatttttgg
     2161 gggcggaaaa acaaaactat gcttgcgtta tgtgagtgtg cttcttgcat tcatccctgt
     2221 cgatgaacat cgaagaacat cgacgaacat aacacgatgt taaacaaaac aaaatattgt
     2281 tcacattcac tgtgaccaac cgcgatcatg tctcctctcg gtggtgtgtg ttcgtgcatc
     2341 ttcctcgcgc tgccattcct cccaggtacg gttaaaaccc agcgagcgga acagatgatc
     2401 cggctgtttt tctggtgtgt tgacggcagc aaaaagcggt acctcacggg ttttcagatg
     2461 aaactgcatc agttctggtg caggtgatat gtggctgtct gcatcgtgat ttacggcaac
     2521 accataccct gcataccgta accccttatc ggtcagcgca ctgatgacca gatgcctgtt
     2581 atcggctgag ggaacggcaa acgcgggata cagcgtacca ttaagccgga taacaccgcc
     2641 cagagagtca tccacgccca tgaccagcaa aagctgaagc tggcgggttt cccggtcgac
     2701 agaactcatg accggcatca gcgtcggtgg cagacgtccc tgcataaaat ccaccttcct
     2761 tgccgctggt gatggcatgg ctggctggcg gtcttctcca agacagaaag actccggcca
     2821 tgtcttcggc tggcggagat tgcgggtatg ttgcggccat gtctggcaaa cctgcgtcag
     2881 cagttgctca aaggttgcag aggaataaac acgttgcagt ggcggacgtt ggccgatttc
     2941 gcttcggtca cagatataac cactcctgtc acgcattaaa tcaacactct caaagattct
     3001 ggtgcggtat ttctccagct cgttccccca gagcgtatat tctccgttcc ggttgtgaag
     3061 cagaaggtaa caggtcattt ccccgttacc aggcatggga gcctcgccat accccgtaac
     3121 gactgcgctc agcacccctg aatccataac ggcattgtca tttttcctga gctgctccgc
     3181 gcgactacgt tcagtatctt cctgttcctt ccggcgcaat tcctcttcac gtttaagcaa
     3241 ctgggctctg agagctgcaa ggccggattc cccccactgc tgccactgtt tttcaaatgc
     3301 catctgactc gcgggaatgt cctgtttctc caccttccgg taatgctgtc gtaatttttc
     3361 catttgctgg ctcagagact ggatttttcc ctgctcacta cggtattccg gtgccgccca
     3421 ttgcatcagg ggaatacggg aaaaaccgga cgaaaacggc gatgattttt tcaggctggc
     3481 agcatggctc atcgcttcct ttcgttcggt gttcagctct tcccagcgtc tgcgcgtcgc
     3541 ctgcatatct gccatcatcg acatggcatt actggtgagt ttccatgccg agttactgtc
     3601 cttcggcaac gcttcgataa tgtcacgtag tgtgtacgaa gttgcgttgt caggaagccc
     3661 gatattcaga aggtcagcca cacggcgggc aggctctgtc agccctccgt tcctgagttc
     3721 ggtgcgggaa atctgtattt ccaggttaag cctgttaatc agacgattct gttcgccgcg
     3781 ttctgtttcg ataccgcgtg tttccatcgc acaggcagac tttccgaggt gaataccagg
     3841 cgttttctca agcccctgtc gctcgtatga acgatggtct atctcttcct gataaccggc
     3901 gttcgccagt gctctgtttg catggtcagc ccatgatgcc cgccacgtct cggcatgtgt
     3961 ccggtcgttc cagtccctga cctttccgct gaacccagca ggtccgatag ccctcgtggt
     4021 cagcatgatg tgcgcatggg gatttgtttt atccatgtga tggaacgcca ca
//
