LOCUS       NZ_CP070076             2938 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1371 plasmid unnamed4.
ACCESSION   NZ_CP070076
VERSION     NZ_CP070076.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357513
            Assembly: GCF_016904255.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2938)
  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  JOURNAL   Unpublished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 2938)
  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                   :: 751.4x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:04:03
            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)                     :: 4,937
            CDSs (total)                      :: 4,819
            Genes (coding)                    :: 4,638
            CDSs (with protein)               :: 4,638
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 181
            CDSs (without protein)            :: 181
            Pseudo Genes (ambiguous residues) :: 0 of 181
            Pseudo Genes (frameshifted)       :: 68 of 181
            Pseudo Genes (incomplete)         :: 109 of 181
            Pseudo Genes (internal stop)      :: 39 of 181
            Pseudo Genes (multiple problems)  :: 34 of 181
            Pseudo Genes (short protein)      :: 4 of 181
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070076.1.
            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/
FEATURES             Location/Qualifiers
     source          1..2938
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1371"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1371"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(702..965)
                     /locus_tag="I6L01_RS00005"
                     /old_locus_tag="I6L01_00005"
     CDS             complement(702..965)
                     /locus_tag="I6L01_RS00005"
                     /old_locus_tag="I6L01_00005"
                     /inference="COORDINATES: protein motif:HMM:NF016876.2"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_023237785.1"
                     /translation="MISKVLWADKALSDRETIFESNDKVSGLSYAKSEDAKIKRAVSTI
                     KRNNKVGRNDLDERGYVYVLPKRYKILYRLTEEHIFIERVFY"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(977..1372)
                     /locus_tag="I6L01_RS00010"
                     /old_locus_tag="I6L01_00010"
     CDS             complement(977..1372)
                     /locus_tag="I6L01_RS00010"
                     /old_locus_tag="I6L01_00010"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000896281.1"
                     /translation="MAFVSQVDKSRAASSRIGDSSIVVTQSYKASTKAQELSIRLKSLV
                     LSKGGMKIGDYVDVLYDKDSDRWMLRKMDGGLKITGKDDAPTGLIRYTLKDTHARFTED
                     KEHLPIRKSSIEDSLEIEDGQIVFKLD"
                     /name="hypothetical protein"
     gene            1595..1882
                     /locus_tag="I6L01_RS00015"
                     /old_locus_tag="I6L01_00015"
     CDS             1595..1882
                     /locus_tag="I6L01_RS00015"
                     /old_locus_tag="I6L01_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004099076.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelB/DinJ family
                     antitoxin"
                     /protein_id="WP_023237786.1"
                     /translation="METRVQFRIESETKKMAKQALEKKGISLSDALRAFLDKLAATEKV
                     MTKEETWLKEQIEETFSRVEKGEIRYYSEDEADERMNSFISKIEHQHETA"
                     /name="type II toxin-antitoxin system RelB/DinJ family
                     antitoxin"
     gene            complement(2684..2833)
                     /locus_tag="I6L01_RS00020"
                     /old_locus_tag="I6L01_00020"
     CDS             complement(2684..2833)
                     /locus_tag="I6L01_RS00020"
                     /old_locus_tag="I6L01_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023237787.1"
                     /translation="MPSEHDEQRDVADTQLPGEYDLFDLMAKVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
ORIGIN
        1 tcgctgcgct cggtcgttcg gctgcggcga gcggtatcgg cttacaggcg gggcggagat
       61 ttcctggaag atgccaagaa gaaacttaac agggaagcga taaggccacg gcggagccgt
      121 ttttccatag gctccgcccc cctgacaagc atcacagaat ctgacactca aatcagtggt
      181 ggcgaaaccc gacaggacta taaagatacc aggcgtttcc ccctgatggc tccctcgtgc
      241 gctctcctgt tcctgccatt cggtttaccg gtgtcattcc gctgttatgg ccgcgtttgt
      301 ctcattccac gcctgacact cagttccggg taggcagttc gctccaagct ggactgtatg
      361 cacgaacccc ccgttcagtc cgacccccac gacaaacaag caactcgact cttgaatcca
      421 atcttgtttg actcaaatta tgacaatggt ggaagcctgt aataactgat ttgcggagcg
      481 tagaaagaag gtaagcaagg atatcttgaa gtgagcagtg aactacggct acactgaaag
      541 aacaagtttt ggtgactgcg ctccgcgaaa gccagttacc acaagtccaa tgagttggta
      601 gctcaaagga ctacgaagaa accaccgttg gtagcggtgg ttttcttcat cccaagatta
      661 atagctaaag agacgcgtag tcaagaaagg tcgccaaacc atcagtagaa aacgcgctca
      721 ataaaaatat gctcctcagt cagccgatac aaaatcttgt atcttttagg tagaacatag
      781 acataacctc gctcatccag gtcatttctg cctactttgt tgtttcgttt tatcgtagaa
      841 acagcacgtt taatttttgc atcttctgat tttgcatacg acaaaccaga aaccttatcg
      901 ttagactcaa agatagtctc tcgatcagat aatgccttat ctgcccatag aaccttagag
      961 atcatcaaac ctcccgctag tcaagcttaa atacaatctg cccatcctca atctccagtg
     1021 aatcctcaat agaggattta cgaataggga ggtgctcttt atcctcggta aatctcgcat
     1081 gtgtatcctt cagggtatat ctaatcaacc ccgtaggggc atcatcctta ccagtaattt
     1141 ttaaacctcc atccatcttc cttaacatcc agcgatcact atccttgtca taaagaacat
     1201 caacgtaatc accaattttc atacctccct tagataacac taacgatttt aatctaatgg
     1261 atagctcctg agccttagtt gaagccttgt atgattgagt gaccactata gacgaatcac
     1321 caatcctgct cgaagcagcc ctagacttat caacctgact aacaaatgcc ataaaacctc
     1381 ctgatagttt attttcatgt tcataatacg atcggcaaaa aatcttagca acacagaacc
     1441 atgtttttat ctgatcttta tcctctctca gaacccgaag aaaaaaagtt actttttcta
     1501 atcataaatc taagaaagga ggcattgact gtagggatcc cagcgtctat tgtgagcaca
     1561 aacgtactca caatagacgc tgggatctat atctatggaa acaagggtgc aattcagaat
     1621 tgaatctgaa acaaagaaaa tggcaaagca agcacttgaa aaaaaaggca tttcacttag
     1681 cgatgcgtta agagcgtttc tcgataagtt agcagcaacg gagaaggtta tgacgaaaga
     1741 agagacatgg ctgaaagagc agatagaaga gacattctca agagtagaaa aaggagagat
     1801 ccgctattac tcagaagatg aagctgacga acgcatgaac tccttcatct ctaaaatcga
     1861 acatcaacac gaaaccgcat aaaaaaagcc gccttatggc ggcttttttt atgcccttat
     1921 ttaccataac cccctaattg tacgcaccgc caaaacggcc tcagggcgtt tctgacagga
     1981 aacaggtaaa acagacaaca aactatcaga aaatcagcca aaaacacgtt agttctgttt
     2041 tcacgtcatg catgagtatg cgcgcaagtg catagcgcgg aaattcacgc cattcagccg
     2101 gggtaagtcc tgtttccgat gttcttctta cccgaaaacg gtgaacgggg acgcaattta
     2161 ttgcgtagcc atgaggcatt ttgccggcac agccggaaaa accattttca gcacgtgcag
     2221 gaagaggggg cggatgtacg aatagttcag aggtcagatc tgacgtaaga atgatgtaaa
     2281 agtgatgtaa ttctgtagtt gatttgtagt ttatctgtag ttagccctct gaaaggcatg
     2341 attaaacatc agcttttgta gtctttttgt agtttacctg tagtcaggaa aactactccg
     2401 ttcatgcgag catgaacgga gtagtgaagg acgctttttt gtcatatcag cctcttaacc
     2461 tgcgcagatg gcccagtcaa aatgatgatt ttttaaccct taaatggtca tacacctaac
     2521 gcagccgcga ttttcatcgc aactgcatga attacataaa aaaaatggga tactccattt
     2581 gtcacggtaa tacgcaaggt attacaatca actgtaaata catgaaaata aagaaataag
     2641 atgtaataca accgtattac acgtacgctt cccaacgaaa aagctataac gcttcccggc
     2701 cgacaggtgg cccggaatcc accggggcgt gcaggttctc ttcagtaacc ttcgccatta
     2761 aatcaaaaag gtcatactcg ccgggaagct gcgtatcagc aacatcccgt tgttcatcat
     2821 gttcagatgg catggggtga tatccagtag ctgagaggtt gttagcgggt tccgggcgca
     2881 gcgccggacc agtcacgtag cgctagcgga gtgtatactg gcttagtatg ttggcatg
//
