LOCUS       NZ_CP033764             5430 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain FDAARGOS_536 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP033764
VERSION     NZ_CP033764.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10163231
            Assembly: GCF_003812625.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5430)
  AUTHORS   Campos,J., Goldberg,B., Tallon,L., Sadzewicz,L., Zhao,X.,
            Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S., Geyer,C.,
            Nandy,P., 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  JOURNAL   Unpublished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 5430)
  AUTHORS   Campos,J., Goldberg,B., Tallon,L., Sadzewicz,L., Zhao,X.,
            Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S., Geyer,C.,
            Nandy,P., Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-NOV-2018) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Spring, MD 20993-0002, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CA v. 8.2, SPAdes v. 3.6.0
            Genome Coverage                   :: 637.91065372549x
            Sequencing Technology             :: PacBio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003812625.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 02:02:53
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,010
            CDSs (total)                      :: 4,893
            Genes (coding)                    :: 4,661
            CDSs (with protein)               :: 4,661
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 232
            CDSs (without protein)            :: 232
            Pseudo Genes (ambiguous residues) :: 0 of 232
            Pseudo Genes (frameshifted)       :: 83 of 232
            Pseudo Genes (incomplete)         :: 168 of 232
            Pseudo Genes (internal stop)      :: 40 of 232
            Pseudo Genes (multiple problems)  :: 52 of 232
            Pseudo Genes (short protein)      :: 1 of 232
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033764.1.
            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..5430
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_536"
                     /isolation_source="Peripheral blood"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_536"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /collection_date="2016-04-02"
                     /collected_by="Children's National Hospital"
     gene            join(5112..5430,1..2)
                     /locus_tag="EGX93_RS25410"
                     /old_locus_tag="EGX93_25425"
     CDS             join(5112..5430,1..2)
                     /locus_tag="EGX93_RS25410"
                     /old_locus_tag="EGX93_25425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000957082.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNTGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGND
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            680..1165
                     /locus_tag="EGX93_RS25560"
     CDS             680..1165
                     /locus_tag="EGX93_RS25560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749519.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001749519.1"
                     /translation="MSSLLALAKDLEKQSKAQQQNTCEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEQKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            1169..1381
                     /locus_tag="EGX93_RS25565"
     CDS             1169..1381
                     /locus_tag="EGX93_RS25565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2182..2613
                     /locus_tag="EGX93_RS25420"
                     /old_locus_tag="EGX93_25435"
     CDS             2182..2613
                     /locus_tag="EGX93_RS25420"
                     /old_locus_tag="EGX93_25435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000874179.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_236930731.1"
                     /translation="MSKTDCIMAFISLSNLAAKTGRIIQSQCVTATQTKKSTGAVELGF
                     RLSKSAMDETGITIGDRVDILYDKEENQWMIKKISEGGFGVSGQKNKHGGYSSCAVRLT
                     LRPGFPRLSEDEEDNKKLLSDDSFTQLSEGVIVFRLDDE"
                     /name="hypothetical protein"
     gene            2871..3434
                     /locus_tag="EGX93_RS25425"
                     /old_locus_tag="EGX93_25440"
     CDS             2871..3434
                     /locus_tag="EGX93_RS25425"
                     /old_locus_tag="EGX93_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015959180.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001749520.1"
                     /translation="MHALSILPSVARANLATKFSSHLKVIELFNTMQDSQVVVLSSLIE
                     GHHLTSSGNSVKADFEVTRLPAIIEMLEKKYFFPIRHLNVSVKSVTTGRMTGQTVYFIE
                     PEHIEQLLADPELVFANQERSLFFRSLEKEGKNLGKLIEKKGSVSQAVLSLLHHAYKDK
                     PLSDEMWKEIEDKFTHMLDELSAA"
                     /name="hypothetical protein"
     gene            complement(3463..4089)
                     /locus_tag="EGX93_RS25430"
                     /old_locus_tag="EGX93_25445"
     CDS             complement(3463..4089)
                     /locus_tag="EGX93_RS25430"
                     /old_locus_tag="EGX93_25445"
                     /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_223149424.1"
                     /translation="MSPTLNKQASKERCAVEFATRKKSKTQRKKSKALSYRGLCFFCTL
                     VTGKCQWTSKMSKQDYIQLRTLTDQFYADNKGLQEALDGSNDGKVRGYGIVVIDLNGLV
                     FGIPLRSHLNHKFGFVSERSEGVKKGLDYTKALLIKKEEYVSRAYKIPTPEFTHINDNK
                     EKIQEDFNKFVNRYIEANVKKDENILRNYRYSTLKNYHKELGLED"
                     /name="hypothetical protein"
     gene            complement(4391..4474)
                     /locus_tag="EGX93_RS26370"
                     /old_locus_tag="EGX93_25455"
     CDS             complement(4391..4474)
                     /locus_tag="EGX93_RS26370"
                     /old_locus_tag="EGX93_25455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_071532987.1"
                     /translation="MHEPPVQSDRCAFSGNYRLESNPERHD"
                     /name="replication initiation protein"
     Typing          4825..5004
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.339"
                     /coverage="83.0"
                     /evalue="7.539999999999999e-48"
     Typing          complement(4366..4879)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.217"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2..1497
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.387"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          5113..5429
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.589"
                     /coverage="100.0"
                     /evalue="9.53e-59"
ORIGIN
        1 aaattccatc cccgggggcg cggtggtggt gccggtccgg tggattacct gctgggaaaa
       61 gaccggcagc gcgagggggc gaccgtgctg cagggaaagc cggaggaagt ccgggagctt
      121 atcgatgcct cgccgtatgc gaaaaagtac acctccggcg tactgtcgtt cgcggaggct
      181 gagctgccgc ccgggcagcg ggagcagatc atggccagct ttgagcgggt tctgatgccc
      241 gggctcgata aagaccagta cagcattctg tgggtggagc acaccgacaa ggggcggctg
      301 gagctgaatt tcctgatccc caacacagag ctgctgaccg ggaaacgcct gcagccgtat
      361 tacgatcgcg ccgaccggcc gcgcatcgat gcctggcaga ccgtggtgaa cggcagactg
      421 gggctgcatg atccaaacgc cccgaagaac cggcggttac tggtcacgcc gtccgcactg
      481 ccggaaacga agctggaagc cgctcaggcg attacacggg gtttgctggc cttagcctca
      541 tccggggcgc tcaaaacgcg cgaggacgtc acagggtcgc tcactgcggc aggttttgag
      601 gtggtccgca ccacaaagaa cagtatcagc attgccgacc cggacggggg gcgaaacatc
      661 cgactgaagg gagccattta tgagcagtct tttagcgctg gcgaaggact tggaaaagca
      721 atcgaaagcg cagcagcaga atacctgcga gatgctgaaa gccgcattca gcgagcacga
      781 gaagtctgta aaagcggaac tgagcgcaag cgcgaagaga atcagcgacg ccatcagcgc
      841 ccacgagcag ggtatgaccg cggcgatgca gtcgaaccgg ctgagcgtgc tgcgtatggt
      901 tggccggacg tggctgacca tcaccctggt ctcagtactg ctgatcgcca cgagcgggag
      961 cattctgtgg tggcaggggc agcagatcac cgggaattac cagactatcc gggcgcagga
     1021 gcggacgcag gccatgctgt cggagaagaa ccacggcgtg cagctgtcgc tctgtgggga
     1081 acagaaactg tcctgcgtca aagtgaaccc gaaagcggga gcttacgggg aggaagggaa
     1141 ctggatggta ctggagagga aatagcccat gacggaactg gaaaaacagt tgctgaccgc
     1201 attagagcag ctacatcagg actactcgca aaggctggac gagtgggaga gcgccttcgc
     1261 ggaatggcag aagatgtctg gtcttatgca acgggagaac gcggcgctga acgagcgcgt
     1321 cacgcgcttg agtcagcagg tggcgaactt gagcaggcag ttacagcgtt tgagccagta
     1381 gtgcagcggc atgaaatggc ggtggccgcc gaacgggcat acgagcagcg acagcatgaa
     1441 aaagagctgg cagaaccccg tttccgtcag cggagctata acggtccgac gctgggctga
     1501 ctgcgcgcat ccagtgacaa accccaagaa gaagggctca taaatttccc gctaaatacg
     1561 gtcgtgatga aaagatcacg gctcaagaga gggggattta tgaagatact aaaagcgctc
     1621 agtctgatac tgcaatgcgt caaactggca atggatctgt gggagcgatt cgggggaaag
     1681 tggccttttt agtgctttac accgtattta tacgcgaaaa ctgctgtcat tcacctggct
     1741 gcataaccat gcagccaggt gaaatttatc tggcgtaaac ggggcggttt accgggtgct
     1801 ttgctagggg tttcacccga caggcaccgt atttgcgccg aaccagcccg aagcggtgcg
     1861 ggcaagaact cttatgttaa attcatctca tcggcaacct atacaggcat aaaaatcagt
     1921 ttctataagc ggctttcttg cacctacttg gtgatttttt tggatgcgct gacgttgctc
     1981 gactttaaat caccatagaa aaataccctt tacttacata aagatcgatc tggatgtgta
     2041 tcttgacgag gttcaatacg agcaattgtt tttgtattta aggtttctta tcgccgtttt
     2101 ttgcggctct agaaaaatca atacaaaaga tcttgaaagt cacctcgctc cctgggtaca
     2161 cttccgtata agaactgatc gatgtctaaa acggattgta ttatggcctt tatctctcta
     2221 tcgaacttgg cagcgaagac tggaaggata atccagtcgc agtgtgttac ggccacgcaa
     2281 acgaaaaaaa gcacgggcgc tgtcgagctg ggattccgct tgagcaagag cgctatggac
     2341 gagactggta ttaccattgg ggatcgtgtc gacattcttt acgacaaaga agaaaaccag
     2401 tggatgatta agaaaattag tgaaggtggc tttggtgtgt ctgggcaaaa aaacaagcac
     2461 ggcggttact catcgtgtgc tgttagattg accttgcgac caggttttcc tcgcctttct
     2521 gaggatgaag aggacaacaa gaagctactt tccgatgatt cattcactca gctaagtgaa
     2581 ggtgtaatcg tcttcaggct ggatgatgaa taggaaggac caaaaaggaa aggcagagtt
     2641 agtgagcgtc gccaaacaat cgactaactc cgccttctgg tcaacacatc actacctttg
     2701 gaagggtgga gtgttatggg cggcattatg ttcataaact tgcattctaa taaagaaaaa
     2761 atcgtttctt ttgagggatg tgaacacgac attttctatt ctgataggtg cgatgctatt
     2821 ggctttggtc tcttaagttt atgtttttaa aaacatatga ggctatacat atgcacgctt
     2881 tatcaatact accttcagtt gcccgcgcta acctggcaac taaattctcg tctcatttga
     2941 aggtgatcga gctcttcaac acgatgcagg attcccaagt tgttgtcttg tcatcactga
     3001 tcgaaggcca tcacctcacc agttctggta acagtgtcaa agccgacttt gaggtcactc
     3061 gcttaccggc gattatcgag atgttagaga aaaaatattt tttccctatt cgtcatctaa
     3121 atgtatctgt taaatctgta actacaggaa ggatgactgg acaaactgtc tatttcatag
     3181 agcctgaaca catcgagcaa cttctcgctg atcctgagct tgtgtttgct aatcaggaaa
     3241 ggagcctctt ctttcgttct ctcgaaaaag aagggaaaaa tctcggcaag cttatcgaga
     3301 aaaaaggtag tgtttctcaa gccgtcttaa gccttctaca tcacgcctac aaagataaac
     3361 ctctttctga cgagatgtgg aaggagatag aagataagtt cacccatatg ctggatgaat
     3421 tgagcgcggc gtaaaggcaa gggcggtcgt tagaccgcct ttttagtctt ctaaacctaa
     3481 ttctttgtga tagtttttca gcgtagagta acgatagttt ctgagtatgt tttcatcttt
     3541 cttgacgttc gcttctatgt atctgtttac gaatttgttg aaatcttctt gtattttttc
     3601 tttgttatca ttgatatggg taaattcagg agttggtatc ttataggctc gcgatacata
     3661 ctcttctttc ttaattagca acgctttggt gtaatccagt cctttcttaa caccttctga
     3721 tcgctccgaa acgaatccaa atttatggtt taaatggctt cgtaagggta tcccgaacac
     3781 caatccgttg agatcaataa ctacgattcc gtagcctctt acttttccat cattactgcc
     3841 gtcgagagcc tcttgtaggc ctttgttatc agcataaaac tggtctgtaa gggttcttaa
     3901 ctgtatgtaa tcctgtttgc tcatttttga tgtccattgg cattttcctg taaccaatgt
     3961 acaaaaaaag caaagccctc tgtaagagag ggctttgctt ttctttcgtt gagtcttgga
     4021 ttttttacgt gtggcgaact ctaccgcaca tctttctttg gaagcttgtt tgtttaacgt
     4081 ggggctcatt cctaccgcca cttctagatt tacttatatc aaaaattata tgtgaagtca
     4141 atttcgtagc tgttcttgac tggacttact ttgccagcgt aatcttctcc tgaaacgaaa
     4201 aaaccaccct ggcaggtggt ttttcgaagg ttatttaatc ctggcagatt atctaaccgt
     4261 ggtaacagtc ttgtgcgaga cgtgtcacca aatccgtcct tccagtgtag cctcagtaag
     4321 gccaccactt caagaactct caatacatct ctcgcacatc atgtttacca gtggccgttg
     4381 ccaatggcga ttagtcgtgt ctttccgggt tggactcaag tcgatagtta ccggaaaagg
     4441 cgcagcggtc ggactgaacg gggggttcgt gcatacagtc cagcttggag cgaactgcct
     4501 acccggaact gagtgtcagg cgtggaatga gataaacgcg gccataacag cggaatgaca
     4561 ccggtaaacc gaaaggcagg aacaggagag cgcacgaggg agccaccagg gggaaacgcc
     4621 tggtatcttt atagtcctgt cgggtttcgc caccactgat ttgagcgtca gatttcgtga
     4681 tgcttgtcag gggggcggag cctatggaaa aacggcagcg ccgcatcctt ttcttgccct
     4741 gtttgtcatg ccgtatgcct ttgctcttat ccgtgtgcag gtaacgcccg ccgcagccga
     4801 acggcaggag cggaagcgac cgagtgagcg aggaggcgta atatcaccgc aacctccatg
     4861 ttctcccgta cgccctgcag ctgcattttc ccctgccaca tgaagcactt ttataaagtg
     4921 ttactccgcc gtaacatatt aagccagtat acactccgct agcgctacgt gactggttca
     4981 gggctgcgcc ccgaaacccg ctaaaagcca ctgacgcgcc tgcggcttgt ccaacaccgt
     5041 gccgaccggg aaacatttcc cgcccgtccc ggtgttatca ggaggctact ctggcagaca
     5101 aacgcaacaa gatgctcacg atgtgggtga cggaagacga acaccggcgg ctgctcgagc
     5161 ggtgcgacgg caagcagctg gcggcgtgga tgcgtcagac ctgcctcgat gagaagccgg
     5221 cgcgtgccgg cagactgccg tcgatatcgc cggcgctgct gcgccagctt gccggtatgg
     5281 gtaataacct gaaccagatc gcccggaaag tgaataccgg tggtgccggt catgaccggg
     5341 tgcagatcgt ggccgccctg atggcaatcg acgcgggact ggagcggctg cggcatgcgg
     5401 tgctggaaaa aggggggaat gatgatcgtt
//
