LOCUS       NZ_CP070138             5631 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1281 plasmid unnamed6, complete
            sequence.
ACCESSION   NZ_CP070138
VERSION     NZ_CP070138.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357423
            Assembly: GCF_016904495.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5631)
  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  JOURNAL   Unpublished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 5631)
  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                   :: 973.38x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:16:42
            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)                     :: 5,536
            CDSs (total)                      :: 5,406
            Genes (coding)                    :: 5,156
            CDSs (with protein)               :: 5,156
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 250
            CDSs (without protein)            :: 250
            Pseudo Genes (ambiguous residues) :: 0 of 250
            Pseudo Genes (frameshifted)       :: 97 of 250
            Pseudo Genes (incomplete)         :: 168 of 250
            Pseudo Genes (internal stop)      :: 38 of 250
            Pseudo Genes (multiple problems)  :: 49 of 250
            Pseudo Genes (short protein)      :: 4 of 250
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070138.1.
            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..5631
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1281"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1281"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(5298..5631,1..533))
                     /locus_tag="I6K11_RS27285"
                     /old_locus_tag="I6K11_27330"
     CDS             complement(join(5298..5631,1..533))
                     /locus_tag="I6K11_RS27285"
                     /old_locus_tag="I6K11_27330"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(535..1587)
                     /locus_tag="I6K11_RS27290"
                     /old_locus_tag="I6K11_27335"
     CDS             complement(535..1587)
                     /locus_tag="I6K11_RS27290"
                     /old_locus_tag="I6K11_27335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(2068..2301)
                     /locus_tag="I6K11_RS27295"
                     /old_locus_tag="I6K11_27340"
     CDS             complement(2068..2301)
                     /locus_tag="I6K11_RS27295"
                     /old_locus_tag="I6K11_27340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2308..2838)
                     /locus_tag="I6K11_RS27300"
                     /old_locus_tag="I6K11_27345"
     CDS             complement(2308..2838)
                     /locus_tag="I6K11_RS27300"
                     /old_locus_tag="I6K11_27345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /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_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(<2876..3307)
                     /locus_tag="I6K11_RS27835"
                     /pseudo=""
     CDS             complement(<2876..3307)
                     /locus_tag="I6K11_RS27835"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(3516..3839)
                     /locus_tag="I6K11_RS27310"
                     /old_locus_tag="I6K11_27355"
     CDS             complement(3516..3839)
                     /locus_tag="I6K11_RS27310"
                     /old_locus_tag="I6K11_27355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3904..4095
                     /locus_tag="I6K11_RS27315"
                     /old_locus_tag="I6K11_27360"
     CDS             3904..4095
                     /locus_tag="I6K11_RS27315"
                     /old_locus_tag="I6K11_27360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(4190..4271)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(4728..4915)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(1965..3526)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ataggctcaa acgatttaat aaggcgagac gatataacaa cataaaatgc tgccgataac
       61 acaccggcaa caacaagaca atatccaaca atattattcg atccattact gatgtctggc
      121 aaggctacca aaatactgcc aacaattgca cctataagga acaatataaa atattgcggg
      181 gaattaattt taactgagca aataagaaca gacaacacca atataaacac tgattcaagt
      241 gaaaaaataa ttgatgcgct tcctgctgaa ataaaataaa gtccgtagag tgtaaaagta
      301 tacgctaaga atggttcaaa aacgcctgtc gcataagcaa gtatcgcttt tgagtttaat
      361 gggagttttt ttctttttat aaaaagaact atccaagata gtattactgc actacaaatc
      421 tgccagaaaa acacccctcc ggcatctagt tcttcaactc cttttttgct cattacgata
      481 gctgcccccc atgagaacgc tgctaaaaaa gcaaaaagca ttcctttaat catattaatc
      541 atcctctttc tcataaaggg gtttgttttc aaatttcctt ggttgaaagg agttaaaaaa
      601 catagatgca tcatctacag gaataccaat aaactctcca taataaggat catctatagg
      661 aaactcttct aatgaaacat aaaacaatac attccagttg aagatcattg gatcactatt
      721 ttctatttca tggagcaatc tttcatcctt agttaattct cctggaatta atacatcagt
      781 atgataaaaa ccgctgtaat aagaactatt accggtgtgc actgggcatc caaaacgatc
      841 caaattagat tctgaatgcc atgttgtaga aatcccttcc ggatgtgaat acccaccctt
      901 accaacagac tgaatagtca tgttacgaat atccgctaac gcttgttctt gatctttata
      961 gaaacctttt tctatcgcca gcctcataaa atgccccggg gcatttacag aaataagtat
     1021 tccccctggt attcttctat catgatttct tgttctatga gcagaagagt aaaaaacatt
     1081 aacaccagcc ttatatattt ttagcccatc tttatcctga aatggtacgc tttcagtata
     1141 aataacatcc tcttttattg gatagcactc tggcatatgc agcgaacaaa tatatttttg
     1201 tatgtccact aactcttctg atggacgagc aaaggcaagt tgtggatgaa taaaataaat
     1261 gagatgcgca ctgacctctc ctcttcttgc gcgttcttta aaacgaactc tttcattacg
     1321 caaaaaatca aacaaatgac catcatcatt atatagttgg gggctattta caatagataa
     1381 atggaaatca agccctttaa ttttcttgct tgccaattta ccaaatacac agggctgatt
     1441 gcctgacacc cattttctta gtaaatcttc aattttatct ttagaagttt cgttaaagat
     1501 aaatgaatga atattatcaa tatcttttcc aaatgaaaaa ctggatgata attgtggtag
     1561 tttatttata cgttgttgaa gattcatgaa agctcccaca agacacctca tatatttttt
     1621 tatatactga aactacatta tatttattac cggcgtaaaa cgaaataatt tattatcgtt
     1681 accgatattt taaaaaaatc attatttgca cagtgttcga gttgttagta tcactccttc
     1741 ctgaaaatcc gctccattta ccataacgtc gcattgtacg caccgccaaa acgcgttcgg
     1801 tgcgatcacg gcagcagaca ggtaaaaatg gcaacaaacc acccgaaaaa ctgccgcgat
     1861 cgcacctgat aaattttaac cgcatgaata cctatgcaac cagatgctac aggccacatt
     1921 agcccgcctt aatccactga acacgtcatt tttcatggtt tcaccatccc agcgaagggc
     1981 catccagtgt ccgctcctgg atttccggct gacgctcccg ctccagagat aactcatgtt
     2041 cgcgttcctg catcagccgt tcatccctta tctcctgttc tcgctgtata actggctcaa
     2101 gcgttctgtc cgctcgctca agtgctgcac ctgctgactc aactgcatga ctcgcccgtt
     2161 cagcatcgcg ttgtcccgtt gcgtaagcga aaacattttc tgcaattcca cgaaggcgtt
     2221 ctcccattcg ttcagccgct gcatatagtc ctgttgcagt tgctctaatg cgttcagcaa
     2281 atgtctttcc agctccgtca tgctctgtca ctcctgcacc agtctcactg cgttcagttt
     2341 gccgttgtcc ttcgtccagt tcgtttcggc tttcatcccc ttcggcaaca ccagaaaacg
     2401 tccgttgctg tcctcgtgat aacgcacgcc ccatgtcttc gcgttcagct tctccagact
     2461 ctctttctgc tcgcggagaa tattcatatt cgcgtttatc ttcatgccct ggtaccacag
     2521 cagactcccg gtcgtggcaa acatcagtac tgagacgata atcagccaca gccagcgttt
     2581 cacgctcatt ttcagtacgg ttttccagtg cgcgtccatc gtatcgacgg tcgttttctg
     2641 atacctctcc agcagttctt tcagggctgt tgtatggtcg ttgatagcgt tcctgattaa
     2701 agattcgttt gaggtcagtt ccctgtttac agattcttcg agcttcctga actcgtcgtt
     2761 cagcattttc tctgtagatt cggctctctc tttcagcttt ttctcgaact ccgcgcccgt
     2821 ctgtaaaaga ttgctcataa aacgctcctt tcagtctgat attcctcccg ccgttcgggt
     2881 ctgcaatgct gatactgctt cgcgtcaccc tgaccacttc aagccccgcc tctgtgagcg
     2941 cctgaatcac atcctgacgg ccttttatct ctccggcatg gtaaagcgcg tctatcccgc
     3001 gtgtgacgcc ctcagcaagc gcctgtttcg tttccggcag gttatcagga agggtcagcg
     3061 tccggcggtt ctccggggcg ttggggtcat gcagaccgta atggtgattc accagcgtct
     3121 gccaggcatc aattctcggc ctgtctgccc ggtcgtagta cggctggagg cgttttccgg
     3181 tctgtagctc catgttcgga atgacaaaat tcagctcaag ccgtcccttg tcctggtgct
     3241 ccacccacag gatgctgtac tgatttttct cgagaccggg catcagtaca cgctcaaagc
     3301 tcgccatcac tttttcacgc cctccaggcg gcagctcctt ctccgcgaac gacagaacac
     3361 ctgacgtgta tttcttcgca aatggcgtgg catcgatgag ttcccggacc tcttccggat
     3421 tcccctgaag caccgttgcc ccttcccggt tacgctccct tcccagcagg taatcaaccg
     3481 gaccactgcc accacctttt cccctggcat gaaacttaac tatcatcccg cgccccctgt
     3541 tccctgaccg ccagacgcag ccggcgcagc tcatccccga tggccatcag tgcggccacc
     3601 acctgaaccc ggtcaccgga agaccactgc ccgctgttca ccttcctcgc tgtctggtta
     3661 aggttattcc cgatggcggc cagctgacgc agtaacggcg gtgccagtgt cggcagcttc
     3721 ccggaacggg caaccggctc acccaggcag acccgccgca tccataccgc cagttgttta
     3781 ccctcacagc gttccagtaa ccgggcatgt tcatcatcag taacccgtat cgtgagcatc
     3841 ctctcgcgtt tcatcggtat cattaccccc atgaacagaa ccccccctta cacggaggca
     3901 tcagtgacca aacaggaaaa aaccgccctt aacatggccc gcttcatcag aggccagaca
     3961 ttaacgctgc tggagaagct caacgaactg gacgcggatg aacaggcaga catctgtgaa
     4021 tcgcttcacg accacgccga tgagctttac cgcagttgcc tcgcacgctt cggggatgac
     4081 ggtgaaaacc gctgacacat gcagctcccg gagacggtca cagcttgtct gtgagcggat
     4141 gccgggagca gacaagcccg ccagggcgcg tcaggccgtt gacctttggg gtgtcggggc
     4201 gaagccctga cccagtcacg tagcgatagc ggagtgtata ctggcttaac cattcggcat
     4261 cagtgcggat tgtatgaaaa gtgcgccatg tccggtgtga aatgccgcac agatgcgtaa
     4321 ggagaaaatg ccagttcagg cgctcttccg cttcctcgct cactgactcg ctacgctcgg
     4381 tcgttcggct gcggcgagcg gactctcctt tctcaaaaac gctaaccctg ttatccacag
     4441 aacccgggga taaaccagga aagaacatgt gcgcaaaaaa cgaaaccccg ggaaaggccg
     4501 cgccggaggc gctttttcca taggctccgc ccccctgacg gacttcacaa aacagacact
     4561 ttttcggtgc atctgtggga gccttgcggc tcaaccatga aatccgccag cggtggcgaa
     4621 acccgacgtg gcttaaagat catcaccgtt tccggtgaat cgctccctcc tgcgccccca
     4681 cgttcccgcc atatcgatta ccggatacct tttccgcctt tctcccttac gggacacgtg
     4741 gcgctttctc atagctcacg tcttctggta tctcggggcg acttaggcag ttcgctccgg
     4801 gctgggctgt atgcaggaac cccccgttca gcccgactgc tgcgccttct ccggtaactg
     4861 ttctcttggg tccaacccgg aaaagacacc acaaagcgcc actggcagca gccattggta
     4921 aaagtcatgt gcgagatatt tagagagtac ttgaagtggc tgccggagtg cggctacact
     4981 agaagaacaa ttttggtgac tcgtctcgca taagacagtt acctggttaa gcagtctgca
     5041 agctgactta accttcgatc aaaccgccct gcaaggcggt tttttcgttt acaggcagca
     5101 gattacgcgc agaaaaaaag gatctcaaga ggatcctttg atctttttgt tacaaacgtc
     5161 tctatttgac tcccctgaga gcgttttagc gcgcctctga cccccttggt tacattccga
     5221 caccagaaac gctcccgttt tttacgtgca tttggcacgg tatcgatgga ggccgggggg
     5281 caatcctgaa cagaatgtta ctcctctgag tattttctgt taagaaaata tacacttagc
     5341 acagttacaa taaatcctac cccctgtaag aatgtgaatt gttcatccaa aaacaaccat
     5401 gacaaaaata atgcaactag cggaataaag tacaacatta tccctgccaa atgaactggg
     5461 agccaacgca aggagttcaa gtaaaaacaa aaagctaaaa aatattgtaa tattccagat
     5521 gaaaaaacaa taatcacgga ttccaacgga agataaattg atgatttaga tataaaaata
     5581 aagagcgatg acagtataag ggagaatgtc aactgtccgc tcaataatgt g
//
