LOCUS       NZ_CP070164             5153 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1283 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP070164
VERSION     NZ_CP070164.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357425
            Assembly: GCF_016904615.1
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  JOURNAL   Unpublished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                   :: 868.58x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:33:33
            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)                     :: 5,127
            CDSs (total)                      :: 5,003
            Genes (coding)                    :: 4,791
            CDSs (with protein)               :: 4,791
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 212
            CDSs (without protein)            :: 212
            Pseudo Genes (ambiguous residues) :: 0 of 212
            Pseudo Genes (frameshifted)       :: 96 of 212
            Pseudo Genes (incomplete)         :: 128 of 212
            Pseudo Genes (internal stop)      :: 49 of 212
            Pseudo Genes (multiple problems)  :: 52 of 212
            Pseudo Genes (short protein)      :: 3 of 212
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070164.1.
            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_1283"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1283"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            179..1744
                     /locus_tag="I6K13_RS25235"
                     /old_locus_tag="I6K13_25230"
     CDS             179..1744
                     /locus_tag="I6K13_RS25235"
                     /old_locus_tag="I6K13_25230"
                     /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_000447003.1"
                     /translation="METAVAYYKDGVPYDDKGQVIITLLNGNPDGSGSGGGGGTGGSKS
                     ESSAAIHATAKWSTAQLKKTQAEQAARAKAAAEAQAKAKANRDALTQHLKDIVNEALRH
                     NSTHPEVIDLAHANNAAMQAEAERLRLAKAEEKARKEAEAAEKAFQEAEQRRKEIEKEQ
                     AETERQLKLAEDEEKRLAALSEEARAVEVAQKNLAAAQSELAKVDEEINTLNTRLSSSI
                     HARDAETNTLSGKRNELDQASAKYKELDERVKLLSPRANDPLQSRPFFEATRLRARAGD
                     EMEEKQKQVTASETRLNQISSEINGIQEAISQANNKRSTAVSRIHDAEDNLKTAQTNLL
                     NSQIKDAVDATVSFYQTLSEKYGEKYSKMAQELADKSKGKKISNVNEALAAFEKYKDVL
                     NKKFSKADRDAIFNALEAVKYEDWAKHLDQFAKYLKITGHVSFGYDVVSDILKIKDTGD
                     WKPLFLTLEKKAVDAGVSYVVVLLFSVLAGTTLGIWGIAIVTGILCAFIDKNKLNTINE
                     VLGI"
                     /name="colicin-like pore-forming protein"
     gene            2130..2267
                     /locus_tag="I6K13_RS25245"
                     /old_locus_tag="I6K13_25240"
     CDS             2130..2267
                     /locus_tag="I6K13_RS25245"
                     /old_locus_tag="I6K13_25240"
                     /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            complement(3109..3303)
                     /locus_tag="I6K13_RS25250"
                     /old_locus_tag="I6K13_25245"
     CDS             complement(3109..3303)
                     /locus_tag="I6K13_RS25250"
                     /old_locus_tag="I6K13_25245"
                     /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            3587..3910
                     /gene="mobA"
                     /locus_tag="I6K13_RS25255"
                     /old_locus_tag="I6K13_25250"
     CDS             3587..3910
                     /gene="mobA"
                     /locus_tag="I6K13_RS25255"
                     /old_locus_tag="I6K13_25250"
                     /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_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(4135..4554)
                     /locus_tag="I6K13_RS25260"
                     /old_locus_tag="I6K13_25255"
     CDS             complement(4135..4554)
                     /locus_tag="I6K13_RS25260"
                     /old_locus_tag="I6K13_25255"
                     /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(4635..5072)
                     /locus_tag="I6K13_RS25265"
                     /old_locus_tag="I6K13_25260"
     CDS             complement(4635..5072)
                     /locus_tag="I6K13_RS25265"
                     /old_locus_tag="I6K13_25260"
                     /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="entry exclusion protein 1"
                     /protein_id="WP_195390224.1"
                     /translation="MGHCNFMAWHTLRDALKMTGRSRSQFYRDMRSGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTQGHSEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAERKQLQNEIAQFRQALEQEKKRGFWSRLFGH"
                     /name="entry exclusion protein 1"
     Typing          3339..3578
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          complement(2551..3080)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.59"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          3588..3907
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.11e-62"
ORIGIN
        1 tggaaatagc acgtggtgtg ggtggctgtt tttttgatcg ttttcacaaa aatgaaaatc
       61 cacagggttg acagggaaaa tgcagcggcg taattttaaa ctgtatataa aaccagtgat
      121 tatatgtaca gtatattgct tttaactatt tgtttttaat gtcaaagagg attttataat
      181 ggaaacagct gtagcgtact ataaagatgg tgttccttat gatgataagg ggcaggtaat
      241 cattactctt ttgaatggta atccagacgg gagtggctct ggcggtggtg gtggaactgg
      301 aggtagcaaa agtgaaagtt ctgcagccat tcatgccaca gctaaatggt ctactgctca
      361 attgaagaaa acgcaggcag aacaggctgc ccgagcaaaa gctgccgcag aagcacaggc
      421 taaagcaaaa gcaaaccggg atgcgctgac tcaacatctg aaggatattg tgaatgaggc
      481 gcttcgccat aattccactc atccggaggt tattgacctg gctcatgcca ataatgcagc
      541 gatgcaggca gaagcagagc ggttgcgcct tgcaaaagca gaagaaaaag cccgtaaaga
      601 agcggaagct gcggaaaagg cttttcagga agcagaacaa cgacgtaaag agatagagaa
      661 ggagcaggct gaaacagaac gccaattgaa actggctgag gatgaagaga aacgcctggc
      721 agcattgagt gaagaggccc gggctgtgga ggtggcacaa aaaaatcttg ctgctgcaca
      781 atctgagctg gcgaaagtgg atgaagagat taatacgctc aatacccgtt taagctccag
      841 tattcatgcc cgtgatgcag aaacgaatac gctgtccgga aaacgaaatg agttggatca
      901 ggcatctgct aaatataaag aactggatga aagggttaaa cttttatctc ctagggcgaa
      961 tgatccgctt cagagtcgtc ctttttttga ggccaccaga ctacgggcga gagctggtga
     1021 tgagatggag gaaaaacaaa agcaggtaac agcatcagaa acgcgtctta accagattag
     1081 ctctgagata aatggaatcc aagaggctat ttctcaggct aataataagc gaagtacagc
     1141 agtttcacgt attcatgatg ctgaagataa tttgaaaaca gcacagacta atctcctgaa
     1201 ctcgcagatt aaggatgctg tggatgcaac agttagcttt tatcaaacgc tatctgaaaa
     1261 atatggtgaa aaatattcaa aaatggcaca ggaacttgct gataaatcta aaggtaagaa
     1321 aatcagcaat gtgaatgaag ctctagctgc ttttgagaaa tacaaggatg tattaaataa
     1381 gaaattcagc aaagcagacc gtgatgcaat tttcaatgca ctggaggcgg ttaagtatga
     1441 agactgggct aagcatttag atcagtttgc caagtacttg aagattacgg gacatgtttc
     1501 ttttggatat gatgtggtat ctgatatcct aaaaattaag gatacaggtg actggaagcc
     1561 gctatttctt acattagaga agaaagctgt agatgctgga gttagttatg ttgttgtttt
     1621 actttttagt gtgcttgctg gaactacatt aggtatctgg gggattgcta ttgttacagg
     1681 cattctatgt gcctttattg ataagaataa acttaatact ataaatgagg tgttgggtat
     1741 ttaattattc tttattgata taaacagtcc tagcaatcca aatgggattg ctaggaccaa
     1801 acaaagtaga ttgtatagca taaataggtt taattttgcc acgggggcat tatttaggtt
     1861 ttttcttttt ctgaaaaaat ctttctttat gaacttaaaa aatatgtgtt caatagcata
     1921 ttttgaatat gggcatagaa tagtgcttat cactattgcg tatagcatct tatctgacgc
     1981 taggaaataa tacccttcgt tgttttttgt tataaggtat atatatataa gtgcgcagta
     2041 taggccaaac aaaatatttt ttatgtagta tcttaaactc ataaattaaa cctcgttata
     2101 tattcttttc attttataag gatcgagtta tgaggaaaag attttttgtg ggaatattcg
     2161 ctataaacct ccttgttgga tgtcaggcta actatatacg tgatgttcag ggagggactg
     2221 tggctccatc atcttcttct aaattgacgg ggatctctgt tcagtagaaa agatcaaagg
     2281 atcttcttga gatccttttt ttctgcgcgt aatctgctgc ctgtaaacga aaaaaccgcc
     2341 tggggaggcg gtttgatcga aggttaagtc agttggggaa ctgcttaacc gaggtaactg
     2401 gcttcagcag agcgcagata ccaaatactg tccttccagt gtagccgtag tcgggccact
     2461 acttcaagaa ctctgttgca ccatttgcgc catcatcgct ctgctaacca agttaccaac
     2521 ggctgctgcc agtggcgcta agtcgtgtct taccgggttg gactcaagac gatagttacc
     2581 ggataaggcg cagcggtcgg gctgaacggg gggttcgtgc acacagccca gcttggagcg
     2641 aacgacctac accgagccga gataccaaca gcgtgagcta tgagaaagcg ccacgcttcc
     2701 cgaagggaga aaggcggaca ggtatccggt aagcggcagg gtcggaacag gagagcgcac
     2761 gagggagctt ccagggggaa acgcctggta tctttatagt cctgtcgggt ttcgccacct
     2821 ctggcttgag cgtcgatttt tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc
     2881 ctgcggcgct ggcttcttcc ggtgctttgc tttttgctca catgttcttt ccggctttat
     2941 cccctgattc tgtggataac cgtattaccg cttttgagtg agctgacacc gctcgccgca
     3001 gtcgaacgtc cgagcgtagc gagtcagtga gcgaggaagc ggaagagcgc cttatgtgac
     3061 attttctcct tacgctctgt tgtgccgttc ggcatcctgt cctgagcgtt atctctctgt
     3121 gctattttct acttcaaagc gtgtctggat gctgttctgg agttcttctg cgagttcgtg
     3181 cagcttctca cacatggtag cctgttcgtc agcatcgagt gcgtccagct tttcgagcag
     3241 cgtcaggctt tggcttttta tgaatcctgc catgttgagt acggcttgct gctgcttgtt
     3301 catcttttcg ttttctccgt tctgtctgtc atctgcgttg tgtgattata tcgcgtacca
     3361 cttttcgact gttttaccgc cggtattctg ccgtctgacg ctttgacggg tatttctgcc
     3421 tgacaatact gtcactgcca aaaaactgcc gtgcctttgt cggtaattcg aacttgctga
     3481 caggacagga tgtgtaattt ttataccgcg catacatgca cgctattaca attaccctgg
     3541 tcagggcttt gccccgacac ccatgtcaga tacggagcca tgttttatga caaaacgaag
     3601 tggaagtaat acgcgcaggc gggctatcag tcgccctgtt cgtctgacgg cagaagaaga
     3661 ccaggaaatc agaaaaaggg ctgctgaatg cggcaagacc gtttccggtt ttttacgggc
     3721 ggcagctctc ggtaagaaag ttaactcact gactgatgat cgggtactga aagaagttat
     3781 gagactgggg gcgttacaga aaaaactctt tatcgacggc aagcgtgtcg gggacaggga
     3841 gtatgcggag gtgctgatcg ctattacgga gtatcaccgt gccctgttat ccaggcttat
     3901 ggcagattag cttcccggag agaaaactgt cgaaaactga cggtatgaac accgtaagct
     3961 cccaaagtga tcaccattcg ctttcatgca tagctatgca gagagctgaa aacgatcctg
     4021 acgcatcctt cctgtttttc cggggtaaaa catctctttt tgcggtgtct gcgtcagaat
     4081 cgcgttcagc gcgtttcagt ggtgcgtaca attaagggat tatggtaaat ccacttactg
     4141 tctgccctcg tagccatcga gataaaccgc agaaatcgtg tcagccagca gcctggattt
     4201 tttcggggta aggtctttgc tgcggtaatc agtacccgca aattgagttg tgccccggag
     4261 tgagtttaaa aattcctggc tgtgaaactg ttgaatgcgt tgttgcacat cactccgtga
     4321 ttttcctgtc gctttatctt tagctcccat atcccagaac tgccgaaaaa aaggcaccat
     4381 cattcgtgtt gtgtcggctt tttgggtgga aaagttggga tcaaaaccgt catcagaagc
     4441 atatacgtaa tgccgggtat gttgttccac gctgcccttt ggggtacagg ctgtgagagc
     4501 tactgttgct gttatcatgg cgataagaca aagtttgttt ccggtacgtc tcatgagtgt
     4561 ctccctaccc taaagtattt attctcggtg agttattatc cgaagattat cttatcatca
     4621 gtttctgagc gcgttcagtg accgaacagc ctggaccaga atccccgttt cttttcctgc
     4681 tccagagcct gcctgaactg ggctatctca ttctgtagct gtttccgttc tgcttcctgg
     4741 cgccggcgct ccgtatcctg ggcttgttta tcctcaagca tcagcgtcag gcattgtttc
     4801 agctcattca gttcccggag aatgcgttct gtctgctgat catgaggttt ttctgagtgt
     4861 ccttgagtgt gcctttctgg tgtctcattc cgctttaatt cgccgtatgc ccggatcagt
     4921 tcactggttt caaactcccg tcgtccgtcc tggctggtac ggtaactgac aagacctgag
     4981 cgcatatcac ggtaaaactg tgaacgcgat cttccagtca ttttcagtgc gtcccggagt
     5041 gtgtgccatg ccataaagtt acagtgtccc ataggtgtct catctcatgg tttcagtaaa
     5101 acataatgag gtctgagaac ggtaatgttt gtgctggttt ttgtggcatc ggg
//
