LOCUS       NZ_CP070120             4072 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1298 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP070120
VERSION     NZ_CP070120.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357440
            Assembly: GCF_016904455.1
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  JOURNAL   Unpublished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                   :: 963.3x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:37:30
            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)                     :: 5,299
            CDSs (total)                      :: 5,180
            Genes (coding)                    :: 4,969
            CDSs (with protein)               :: 4,969
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 211
            CDSs (without protein)            :: 211
            Pseudo Genes (ambiguous residues) :: 0 of 211
            Pseudo Genes (frameshifted)       :: 78 of 211
            Pseudo Genes (incomplete)         :: 128 of 211
            Pseudo Genes (internal stop)      :: 48 of 211
            Pseudo Genes (multiple problems)  :: 40 of 211
            Pseudo Genes (short protein)      :: 4 of 211
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070120.1.
            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_1298"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1298"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(2900..4072,1..987)
                     /gene="mobQ"
                     /locus_tag="I6K28_RS26155"
                     /old_locus_tag="I6K28_26095"
     CDS             join(2900..4072,1..987)
                     /gene="mobQ"
                     /locus_tag="I6K28_RS26155"
                     /old_locus_tag="I6K28_26095"
                     /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(1243..1935)
                     /locus_tag="I6K28_RS26160"
                     /old_locus_tag="I6K28_26100"
     CDS             complement(1243..1935)
                     /locus_tag="I6K28_RS26160"
                     /old_locus_tag="I6K28_26100"
                     /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(2467..2721)
                     /gene="mobC"
                     /locus_tag="I6K28_RS26165"
                     /old_locus_tag="I6K28_26105"
     CDS             complement(2467..2721)
                     /gene="mobC"
                     /locus_tag="I6K28_RS26165"
                     /old_locus_tag="I6K28_26105"
                     /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(2723..2899)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2900..3258
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(1244..1935)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          65..984
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.674"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          2814..4072
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.048"
                     /coverage="97.0"
                     /evalue="0.0"
ORIGIN
        1 cttgcagctc tcagagtcca gttgcttaaa cgtgaagagg aattgcgccg gaaggagcag
       61 gaggatacag aacgtagtcg cgcggagcga cgagcggaac agctcaggaa aaatgacaat
      121 gccgttatgg attcaggggt actgagcgca gtcgttacgg ggtatggcga ggcccccatg
      181 cctggtaacg gggaaatgac ctgttacctt ctgcttcaca accggaacgg agaatacacg
      241 ctctggggga acgagctgga gaaataccgc accagaatct ttgagcgtgt tgatttaatg
      301 cgtgacagga gtggttatat ctgtgaccga agcgaaatcg gtcaacatcc accactgcaa
      361 cgtgtttatt cctctgcgac ctttgagcaa cttctgacgc aggtttgcca gacatggccg
      421 caatataccc gcaatctccg ccagccgaag acatggccgg agtctttctg tcttggagaa
      481 gaccgccagc cagccatgcc atcactggca gcaaggaagg tggattttac gcagggacgt
      541 ctgctaccga cgctgatgcc ggtaatgagt tctgtcgacc gggaaacccg ccagcttcag
      601 cttttgctgg tcatgggcgt ggatgactct ctgggcggtg ttgtccggct taatggtacg
      661 ctgtatcccg cgtttgccgt tccctcagcc gataacagcc agctggtcat cagtgcactg
      721 accgataagg ggttacggta tgcagggtat ggtgttgccg taaatcacga tgcagacagc
      781 cacatatcac ctgcgccgga acttatggag tttcatctga aaacccgtga ggcaccgctt
      841 tttgctgccg tcaacacacc agaaaaacag ccggatcatc tgttccgctc tctgggtttc
      901 aatcgtacct gggatgaatg gcggcgcgag gaagatgcaa gaacacacac caccgagagg
      961 agacatgatc gcggttggtc acagtgaatg tgaacaatat tttgttttgt ttaacatcgt
     1021 gttatgttcg tcgatgttct tctatgttca tcgacaggga tgaatgcaag aagcacacac
     1081 ataatgcaag catagttttg tttttccgcc cccaaaaatt gggggttctt ttttcgctgc
     1141 attagagcgc ttttgacgca atttttcact tcaatagtac cttcgcacta ctaacacaaa
     1201 aaaaacgcag cagggagcgt tttaggtgcc ttaaaatcga ttttagatcg tcatcttgat
     1261 ctgtttgtct tccttgaagc gaaaatgcag ggctacaacc gtgcgcccct ttttgatcgt
     1321 ctcaaccgtt acagccaggt cgcttttttt gttcagttcg tcaacacagg gttttattag
     1381 tattttattt aagtctctga attgtttgta tttattttca atccctaaca ttgaacgaaa
     1441 gtcattaaga gcaataattc tctctcccgt actgcggaat tgctggagga actcgtatat
     1501 tcttatactg taactacttg ataaacctga tatgtttttt ataacaacgc gcgtgaattg
     1561 ccccttcagt tgcgtcagat aaggcattac cgcgtcagaa aaggttattc gagccttggc
     1621 ctcaccttta gcgtactgtg cccgatactg gatccagcgg aactcctcac gcttctcgtc
     1681 attcttgaga atgatcgacc tgtcccataa acgatcgatc gcttcctgta actgaacctc
     1741 ggcatttttc cgccccatgt cagggaatga atcaaaatat tccgcagcgg taatggtcat
     1801 tgtcttttgc aattcagcat cagcaccaga tttcaatcga ctgatacaca gcaacagaaa
     1861 acgttgttcc tgtagggtca acttgtagct ggcctcaacc aaagcattcg acttgtaggc
     1921 aatcaagtcc gacatacaaa gatcccgttc aaatgtggtg atgctttaat gtgccccaca
     1981 aataagaaat gtggaatatt tttttttata tcctcacatt tctgtgaata acaccttaaa
     2041 ttcctccacc tttaccttaa attcctccac ctaaacacct taaattcctc cacctttacc
     2101 ttaaattcct ccacatatac ctctataaca tattgatttt attaatgaat tttgacccta
     2161 aaacaagtat taaaaacaag atcttaaaaa caagatctaa aaacttaacg gcgagcctgt
     2221 ggataacttg gggcgctgaa aacaaaaaac caataaaaac aatgtgttgc aagaaagcag
     2281 aattgcaagt tccgaatact ccccttccaa ccctgtggaa atccagtatt catgcgggtt
     2341 cagcgcatat cacctaccga aaaaccgtgc gtatgtgctc aacctggcga cggattcact
     2401 tccgcttcct cgcccactcg ctcgctaacg ctcggtcgct ggggctgcgg cgagcggacg
     2461 atacaatcac tgtcctggca gcgcctccag ctcgttaatc agcggcagta tgcgcgtcac
     2521 atcagcctgt cgtgtcacct ctgccttcag gaactggagt aaccaggcac gcaactgcac
     2581 ctcctccggc tttctgacct ttgccagcaa tgctgcaccc acaacaacct tctgcgctgt
     2641 gtccaggctc cggctcttcg ccttcaggcg ctgtaatctc gcctcagcat cagcaatctt
     2701 ctgttcgagc gttctgctca tgatgtaact ccgtgcgcga tgaaaaatcg cattttagcg
     2761 cgtcactggt agtttaaaaa ctgagctggc ataatgcgcg acaaatcaca aagtgcgcac
     2821 ttatacaatc tccactccgt ttcgattgtg tgcgccctgc ggggctgaaa gaaaactaca
     2881 aaaaggcatt acggcagaaa tggcgattta tcatctcagc atgaaaatta tctccagaag
     2941 cagcggctac agcgccgtag cttccgctgc ctatcgttcc ggttcactga tgcttgatga
     3001 gcgtaccgga ctgactcacg actacacccg caaaagcggt gtggctgaag ctgtgattct
     3061 gacccccgcg acagcccctg cctggtgtac gaaccgtgcc gaactctgga atgccgttga
     3121 gaaggccgaa tgccggaaga actcacaact tgcgcgggaa attgaactcg ctatcccccg
     3181 tgaactgccg caggatgccg cacgggaaac cgttctcgcc tttgtcagag aaaactttgt
     3241 cagtcagggc atgattgctg atgtggcgtt ccatcacatg gataaaacaa atccccatgc
     3301 gcacatcatg ctgaccacga gggctgtcgg acctgctggg ttcggcggaa aggtcaggga
     3361 ctggaacgac cggacacatg ccgagacgtg gcgtgcatca tgggctgacc atgcaaacag
     3421 agcactggcg aacgccggtt atcaggaaga gatagaccat cgttcatacg agcgacaggg
     3481 gcttgagaaa acgcctggta ttcacctcgg aaagtctgcc tgtgcgatgg aaacacgcgg
     3541 tatcgaaaca gaacgcggcg aacagaatcg tctgattaac aggcttaacc tggaaataca
     3601 gatttcccgc actgaactca ggaacagcgg gctgacagag cctgcccgcc gtgtggctga
     3661 ccttctgaat atcgtgcttc ctgacaacgc aacttcgtac acactacgtg acatcatcga
     3721 agcgttgccg aaggacagta atgcggcatg gaaactcacc agtaatgcca tgtcgatgat
     3781 ggcagatatg caggcgacgc gcagacgctg ggaagagctg aacaccgaac gaaaggaagc
     3841 gatgagccat gctgccagcc tgaaaaaatc atcgccgttt tcgtccggtt tttcccgtat
     3901 tcccctgatg caatgggcgg caccggaata ccgtagcgaa cagggaaaaa tccagtcgct
     3961 gagccagcaa atggaaaaat tgcgacagca ttaccggaag gtggagaaac aggacattcc
     4021 cgcgagtcag acggcatttg aaaaacagtg gcagcagtgg ggggcatccg gc
//
