LOCUS       NZ_CP069938             5153 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1302 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP069938
VERSION     NZ_CP069938.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357444
            Assembly: GCF_016903435.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5153)
  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  JOURNAL   Unpublished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 5153)
  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                   :: 1342.09x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:02:54
            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)                     :: 5,040
            CDSs (total)                      :: 4,924
            Genes (coding)                    :: 4,706
            CDSs (with protein)               :: 4,706
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 218
            CDSs (without protein)            :: 218
            Pseudo Genes (ambiguous residues) :: 0 of 218
            Pseudo Genes (frameshifted)       :: 80 of 218
            Pseudo Genes (incomplete)         :: 142 of 218
            Pseudo Genes (internal stop)      :: 43 of 218
            Pseudo Genes (multiple problems)  :: 45 of 218
            Pseudo Genes (short protein)      :: 4 of 218
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069938.1.
            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..5153
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1302"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1302"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(4338..5153,1..750))
                     /locus_tag="I6K32_RS24875"
                     /old_locus_tag="I6K32_24875"
     CDS             complement(join(4338..5153,1..750))
                     /locus_tag="I6K32_RS24875"
                     /old_locus_tag="I6K32_24875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000447006.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA];
                     GO:0050829 - defense response to Gram-negative bacterium
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like pore-forming protein"
                     /protein_id="WP_083575038.1"
                     /translation="METAVAYYKDGVPYDDKGQVIITLLNGNPDGSGSGGGGGTGGSKS
                     ESSAAIHATAKWSTAQLKKTQAEQAARAKAAAEAQAKAKANRDALTQHLKDIVNEALRH
                     NSTHPEVIDLAHANNAAMQAEAERLRLAKAEEKARKEAEAAEKAFQEAEQRRKEIEKEQ
                     AETERQLKLAEDEEKRLAALSEEARAVEVAQKNLAAAQSELVKVDEEINTLNTRLSSSI
                     HARDAETNTLSGKRNELDQASAKYKELDERVKLLSPRANDPLQSRPFFEATRLRARAGD
                     EMEEKQKQVTASETRLNQISSEINGIQEAISQANNKRSTAVSRIHDAEDNLKTAQTNLL
                     NSQIKDAVDATVSFYQTLSEKYGEKYSKMAQELADKSKGKKISNVNEALAAFEKYKDVL
                     NKKFSKADRDAIFNALEAVKYEDWAKHLDQFAKYLKITGHVSFGYDVVSDILKIKDTGD
                     WKPLFLTLEKKAVDAGVSYVVVLLFSVLAGTTLGIWGIAIVTGILCAFIDKNKLNTINE
                     VLGI"
                     /name="colicin-like pore-forming protein"
     gene            1010..1447
                     /locus_tag="I6K32_RS24880"
                     /old_locus_tag="I6K32_24880"
     CDS             1010..1447
                     /locus_tag="I6K32_RS24880"
                     /old_locus_tag="I6K32_24880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001318234.1"
                     /translation="MGHCNFMAWHTLRDALKMTGRSRSQFYRDMRSGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTQGHSEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAERKQLQNEIAQLRQALEQEKKRGFWSRLFGH"
                     /name="hypothetical protein"
     gene            1528..1947
                     /locus_tag="I6K32_RS24885"
                     /old_locus_tag="I6K32_24885"
     CDS             1528..1947
                     /locus_tag="I6K32_RS24885"
                     /old_locus_tag="I6K32_24885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WP_001254967.1"
                     /translation="MRRTGNKLCLIAMITATVALTACTPKGSVEQHTRHYVYASDDGFD
                     PNFSTQKADTTRMMVPFFRQFWDMGAKDKATGKSRSDVQQRIQQFHSQEFLNSLRGTTQ
                     FAGTDYRSKDLTPKKSRLLADTISAVYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     gene            complement(2172..2495)
                     /gene="mobA"
                     /locus_tag="I6K32_RS24890"
                     /old_locus_tag="I6K32_24890"
     CDS             complement(2172..2495)
                     /gene="mobA"
                     /locus_tag="I6K32_RS24890"
                     /old_locus_tag="I6K32_24890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_001437508.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEEQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            2779..2973
                     /locus_tag="I6K32_RS24895"
                     /old_locus_tag="I6K32_24895"
     CDS             2779..2973
                     /locus_tag="I6K32_RS24895"
                     /old_locus_tag="I6K32_24895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041621.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3815..3952)
                     /locus_tag="I6K32_RS24900"
                     /old_locus_tag="I6K32_24900"
     CDS             complement(3815..3952)
                     /locus_tag="I6K32_RS24900"
                     /old_locus_tag="I6K32_24900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405930.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_001329514.1"
                     /translation="MRKRFFVGIFAINLLVGCQANYIRDVQGGTVAPSSSSKLTGISVQ
                     "
                     /name="colicin release lysis protein"
     gene            4114..4341
                     /locus_tag="I6K32_RS24905"
                     /old_locus_tag="I6K32_24905"
     CDS             4114..4341
                     /locus_tag="I6K32_RS24905"
                     /old_locus_tag="I6K32_24905"
                     /inference="COORDINATES: protein motif:HMM:NF015489.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin E1 immunity protein"
                     /protein_id="WP_015056439.1"
                     /translation="MLYAIVISTILCPYSKYAIEHIFFKFIKKDFFRKRKNLNNAPVAK
                     LNLFMLYNLLCLVLAIPFGLLGLFISIKNN"
                     /name="colicin E1 immunity protein"
     Typing          complement(2505..2744)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          3005..3532
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.569"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          complement(2176..2495)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="1.3199999999999998e-61"
ORIGIN
        1 atccagttct ttatatttag cagatgcctg atccaactca tttcgttttc cggacagcgt
       61 attcgtttct gcatcacggg catgaatact ggagcttaaa cgggtattga gcgtattaat
      121 ctcttcatcc actttcacca gctcagattg tgcagcagca agattttttt gtgccacctc
      181 cacagcccgg gcctcttcac tcaatgctgc caggcgtttc tcttcatcct cagccagttt
      241 caattggcgt tctgtttcag cctgctcctt ctctatctct ttacgtcgtt gttctgcttc
      301 ctgaaaagcc ttttccgcag cttccgcttc tttacgggct ttttcttctg cttttgcaag
      361 gcgcaaccgc tctgcttctg cctgcatcgc tgcattattg gcatgagcca ggtcaataac
      421 ctccggatga gtggaattat ggcgaagcgc ctcattcaca atatccttca gatgttgagt
      481 cagcgcatcc cggtttgctt ttgctttagc ctgtgcttct gcggcagctt ttgctcgggc
      541 agcctgttct gcctgcgttt tcttcaattg agcagtagac catttagctg tggcatgaat
      601 ggctgcagaa ctttcacttt tgctacctcc agttccacca ccaccgccag agccactccc
      661 gtctggatta ccattcaaaa gagtaatgat tacctgcccc ttatcatcat aaggaacacc
      721 atctttatag tacgctacag ctgtttccat tataaaatcc tctttgacat taaaaacaaa
      781 tagttaaaag caatatactg tatatataat cactggtttt atatacagtt tgaaattacg
      841 ccgctgtatt ttccctgtca accctgtgga ttttcatttt tgtgaaaacg atcaaaaaaa
      901 cagccaccca caccacgtgc tatttccacc cgatgccaca aaaaccagca caaacattac
      961 cgttctcaga cctcattatg ttttactgaa accatgagat gagacaccta tgggacactg
     1021 taactttatg gcatggcaca cactccggga cgcactgaaa atgactggaa gatcgcgttc
     1081 acagttttac cgtgatatgc gctcaggtct tgtcagttac cgtaccagcc aggacggacg
     1141 acgggagttt gaaaccagtg aactgatccg ggcatacggc gaattaaagc ggaatgagac
     1201 accagaaagg cacactcaag gacactcaga aaaacctcat gatcagcaga cagaacgcat
     1261 tctccgggaa ctgaatgagc tgaaacaatg cctgacgctg atgcttgagg ataaacaagc
     1321 ccaggatacg gagcgccggc gccaggaagc agaacggaaa cagctacaga atgagatagc
     1381 ccagctcagg caggctctgg agcaggaaaa gaaacgggga ttctggtcca ggctgttcgg
     1441 tcactgaacg cgctcagaaa ctgatgataa gataatcttc ggataataac tcaccgagaa
     1501 taaatacttt aaggtaggga gacactcatg agacgtaccg gaaacaaact ttgtcttatc
     1561 gccatgataa cagcaacagt agctctcaca gcctgtaccc caaagggcag cgtggaacaa
     1621 catacccggc attacgtata tgcttctgat gacggttttg atcccaactt ttccacccaa
     1681 aaagccgaca caacacgaat gatggtgcct ttttttcggc agttctggga tatgggagct
     1741 aaagataaag cgacaggaaa atcacggagt gatgtgcaac aacgcattca acagtttcac
     1801 agccaggaat ttttaaactc actccggggc acaactcaat ttgcgggtac tgattaccgc
     1861 agcaaagacc ttaccccgaa aaaatccagg ctgctggctg acacgatttc tgcggtttat
     1921 ctcgatggct acgagggcag acagtaagtg gatttaccat aatcccttaa ttgtacgcac
     1981 cactgaaacg cgctgaacgc gattctgacg cagacaccgc aaaaagagat gttttacccc
     2041 ggaaaaacag gaaggatgcg tcaggatcgt tttcagctct ctgcatagct atgcatgaaa
     2101 gcgaatggtg atcactttgg gagcttacgg tgttcatacc gtcagttttc gacagttttc
     2161 tctccgggaa gctaatctgc cataagcctg gataacaggg cacggtgata ctccgtaata
     2221 gcgatcagca cctccgcata ctccctgtcc ccgacacgct tgccgtcgat aaagagtttt
     2281 ttctgtaacg cccccagtct cataacttct ttcagtaccc gatcatcagt cagtgagtta
     2341 actttcttac cgagagctgc cgcccgtaaa aaaccggaaa cggtcttgcc gcattcagca
     2401 gccctttttc tgatttcctg ttcttcttct gccgtcagac gaacagggcg actgatagcc
     2461 cgcctgcgcg tattacttcc acttcgtttt gtcataaaac atggctccgt atctgacatg
     2521 ggtgtcgggg caaagccctg accagggtaa ttgtaatagc gtgcatgtat gcgcggtata
     2581 acaattacac atcctgtcct gtcagcaagt tcgaattacc gacaaaggca cggcagtttt
     2641 ttggcagtga cagtattgtc aggcagaaat acccgtcaaa gcttcagacg gcagaatacc
     2701 ggcggtaaaa cagtcgaaaa gtggtacgcg atataatcac acaacgcaga tgacagacag
     2761 aacggagaaa acgaaaagat gaacaagcag cagcaagccg tactcaacat ggcaggattc
     2821 ataaaaagcc aaagcctgac gctgctcgaa aagctggacg cactcgatgc tgacgaacag
     2881 gctaccatgt gtgagaagct gcacgaactc gcagaagaac tccagaacag catccagaca
     2941 cgctttgaag tagaaaatag cacagagaga taacgctcag gacaggatgc cgaacggcac
     3001 aatagagcgt aaggagaaaa tgtcacataa ggcgctcttc cgcttcctcg ctcactgact
     3061 cgctacgctc ggacgttcga ctgcggcgag cggtgtcagc tcactcaaaa gcggtaatac
     3121 ggttatccac agaatcaggg gataaagccg gaaagaacat gtgagcaaaa agcaaagcac
     3181 cggaagaagc cagcgccgca ggcgtttttc cataggctcc gcccccctga cgagcatcac
     3241 aaaaatcgac gctcaagcca gaggtggcga aacccgacag gactataaag ataccaggcg
     3301 tttccccctg gaagctccct cgtgcgctct cctgttccga ccctgccgct taccggatac
     3361 ctgtccgcct ttctcccttc gggaagcgtg gcgctttctc atagctcacg ctgttggtat
     3421 ctcggctcgg tgtaggtcgt tcgctccaag ctgggctgtg tgcacgaacc ccccgttcag
     3481 cccgaccgct gcgccttatc cggtaactat cgtcttgagt ccaacccggt aagacacgac
     3541 ttagcgccac tggcagcagc cgttggtaac ttggttagca gagcgatgat ggcgcaaatg
     3601 gtgcaacaga gttcttgaag tagtggcccg actacggcta cactggaagg acagtatttg
     3661 gtatctgcgc tctgctgaag ccagttacct cggttaagca gttccccaac tgacttaacc
     3721 ttcgatcaaa ccgcctcccc aggcggtttt ttcgtttaca ggcagcagat tacgcgcaga
     3781 aaaaaaggat ctcaagaaga tcctttgatc ttttctactg aacagagatc cccgtcaatt
     3841 tagaagaaga tgatggagcc acagtccctc cctgaacatc acgtatatag ttagcctgac
     3901 atccaacaag gaggtttata gcgaatattc ccacaaaaaa tcttttcctc ataactcgat
     3961 ccttataaaa tgaaaagaat atataacgag gtttaattta tgagtttaag atactacata
     4021 aaaaatattt tgtttggcct atactgcgca cttatatata tataccttat aacaaaaaac
     4081 aacgaagggt attatttcct agcgtcagat aagatgctat acgcaatagt gataagcact
     4141 attctatgcc catattcaaa atatgctatt gaacacatat tttttaagtt cataaagaaa
     4201 gattttttca gaaaaagaaa aaacctaaat aatgcccccg tggcaaaatt aaacctattt
     4261 atgctataca atctactttg tttggtccta gcaatcccat ttggattgct aggactgttt
     4321 atatcaataa agaataatta aatacccaac acctcattta tagtattaag tttattctta
     4381 tcaataaagg cacatagaat gcctgtaaca atagcaatcc cccagatacc taatgtagtt
     4441 ccagcaagca cactaaaaag taaaacaaca acataactaa ctccagcatc tacagctttc
     4501 ttctctaatg taagaaatag cggcttccag tcacctgtat ccttaatttt taggatatca
     4561 gataccacat catatccaaa agaaacatgt cccgtaatct tcaagtactt ggcaaactga
     4621 tctaaatgct tagcccagtc ttcatactta accgcctcca gtgcattgaa aattgcatca
     4681 cggtctgctt tgctgaattt cttatttaat acatccttgt atttctcaaa agcagctaga
     4741 gcttcattca cattgctgat tttcttacct ttagatttat cagcaagttc ctgtgccatt
     4801 tttgaatatt tttcaccata tttttcagat agcgtttgat aaaagctaac tgttgcatcc
     4861 acagcatcct taatctgcga gttcaggaga ttagtctgtg ctgttttcaa attatcttca
     4921 gcatcatgaa tacgtgaaac tgctgtactt cgcttattat tagcctgaga aatagcctct
     4981 tggattccat ttatctcaga gctaatctgg ttaagacgcg tttctgatgc tgttacctgc
     5041 ttttgttttt cctccatctc atcaccagct ctcgcccgta gtctggtggc ctcaaaaaaa
     5101 ggacggctct gaagcggatc attcgcccta ggagataaaa gtttaaccct ttc
//
