LOCUS       NZ_CP070129             4992 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1292 plasmid unnamed5.
ACCESSION   NZ_CP070129
VERSION     NZ_CP070129.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357434
            Assembly: GCF_016904475.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4992)
  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  JOURNAL   Unpublished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 4992)
  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                   :: 1353.32x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:30:25
            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)                     :: 5,003
            CDSs (total)                      :: 4,888
            Genes (coding)                    :: 4,705
            CDSs (with protein)               :: 4,705
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 183
            CDSs (without protein)            :: 183
            Pseudo Genes (ambiguous residues) :: 0 of 183
            Pseudo Genes (frameshifted)       :: 71 of 183
            Pseudo Genes (incomplete)         :: 119 of 183
            Pseudo Genes (internal stop)      :: 40 of 183
            Pseudo Genes (multiple problems)  :: 44 of 183
            Pseudo Genes (short protein)      :: 4 of 183
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070129.1.
            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..4992
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1292"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1292"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            <1..508
                     /locus_tag="I6K22_RS24690"
                     /old_locus_tag="I6K22_24690"
     CDS             <1..508
                     /locus_tag="I6K22_RS24690"
                     /old_locus_tag="I6K22_24690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=2
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_064753394.1"
                     /translation="AEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNESLIRNAIN
                     DHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTGSLLWYQGM
                     KINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTKDNGKLNAV
                     RLVQE"
                     /name="MbeB family mobilization protein"
     gene            515..748
                     /locus_tag="I6K22_RS24695"
                     /old_locus_tag="I6K22_24695"
     CDS             515..748
                     /locus_tag="I6K22_RS24695"
                     /old_locus_tag="I6K22_24695"
                     /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_204678133.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1229..2281
                     /locus_tag="I6K22_RS24700"
                     /old_locus_tag="I6K22_24700"
     CDS             1229..2281
                     /locus_tag="I6K22_RS24700"
                     /old_locus_tag="I6K22_24700"
                     /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            2283..3149
                     /locus_tag="I6K22_RS24705"
                     /old_locus_tag="I6K22_24705"
     CDS             2283..3149
                     /locus_tag="I6K22_RS24705"
                     /old_locus_tag="I6K22_24705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /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: Protein Homology."
                     /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(4352..4543)
                     /locus_tag="I6K22_RS24710"
                     /old_locus_tag="I6K22_24710"
     CDS             complement(4352..4543)
                     /locus_tag="I6K22_RS24710"
                     /old_locus_tag="I6K22_24710"
                     /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"
     gene            4608..4931
                     /locus_tag="I6K22_RS24715"
                     /old_locus_tag="I6K22_24715"
     CDS             4608..4931
                     /locus_tag="I6K22_RS24715"
                     /old_locus_tag="I6K22_24715"
                     /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_125094207.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMIIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          4177..4258
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          3533..3720
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          4576..4928
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.61"
                     /coverage="100.0"
                     /evalue="1.74e-68"
ORIGIN
        1 cgcggagttc gagaaaaagc tgaaagagag agccgaatct acagagaaaa tgctgaacga
       61 cgagttcagg aagctcgaag aatctgtaaa cagggaactg acctcaaacg aatctttaat
      121 caggaacgct atcaacgacc atacaacagc cctgaaagaa ctgctggaga ggtatcagaa
      181 aacgaccgtc gatacgatgg acgcgcactg gaaaaccgta ctgaaaatga gcgtgaaacg
      241 ctggctgtgg ctgattatcg tctcagtact gatgtttgcc acgaccggga gtctgctgtg
      301 gtaccagggc atgaagataa acgcgaatat gaatattctc cgcgagcaga aagagagtct
      361 ggagaagctg aacgcgaaga catggggcgt gcgttatcac gaggacagca acggacgttt
      421 tctggtgttg ccgaagggga tgaaagccga aacgaactgg acgaaggaca acggcaaact
      481 gaacgcagtg agactggtgc aggagtgaca gagcatgacg gagctggaaa gacatttgct
      541 gaacgcatta gagcaactgc aacaggacta tatgcagcgg ctgagcgaat gggagaacgc
      601 cttcgtggaa ttgcagaaaa tgttttcgct tacgcaacgg gacaacgcga tgctgaacgg
      661 gcgagtcatg cagttgagtc agcaggtgca gcacttgagc gagcggacag aacgcttgag
      721 ccagttatac agcgagaaca ggagataagg gatgaacggc tgatgcagga acgcgaacat
      781 gagttatctc tggagcggga gcgtcagccg gaaatccagg agcggacact ggatggccct
      841 tcgctgggat ggtgaaacca tgaaaaatga cgtgttcagt ggattaaggc gggctaatgt
      901 ggcctgtagc atctggttgc ataggtattc atgcggttaa aatttatcag gtgcgatcgc
      961 ggcagttttt cgggtggttt gttgccattt ttacctgtct gctgccgtga tcgcaccgaa
     1021 cgcgttttgg cggtgcgtac aatgcgacgt tatggtaaat ggagcggatt ttcaggaagg
     1081 agtgatacta acaactcgaa cactgtgcaa ataatgattt ttttaaaata tcggtaacga
     1141 taataaatta tttcgtttta cgccggtaat aaatataatg tagtttcagt atataaaaaa
     1201 atatatgagg tgtcttgtgg gagctttcat gaatcttcaa caacgtataa ataaactacc
     1261 acaattatca tccagttttt catttggaaa agatattgat aatattcatt catttatctt
     1321 taacgaaact tctaaagata aaattgaaga tttactaaga aaatgggtgt caggcaatca
     1381 gccctgtgta tttggtaaat tggcaagcaa gaaaattaaa gggcttgatt tccatttatc
     1441 tattgtaaat agcccccaac tatataatga tgatggtcat ttgtttgatt ttttgcgtaa
     1501 tgaaagagtt cgttttaaag aacgcgcaag aagaggagag gtcagtgcgc atctcattta
     1561 ttttattcat ccacaacttg cctttgctcg tccatcagaa gagttagtgg acatacaaaa
     1621 atatatttgt tcgctgcata tgccagagtg ctatccaata aaagaggatg ttatttatac
     1681 tgaaagcgta ccatttcagg ataaagatgg gctaaaaata tataaggctg gtgttaatgt
     1741 tttttactct tctgctcata gaacaagaaa tcatgataga agaataccag ggggaatact
     1801 tatttctgta aatgccccgg ggcattttat gaggctggcg atagaaaaag gtttctataa
     1861 agatcaagaa caagcgttag cggatattcg taacatgact attcagtctg ttggtaaggg
     1921 tgggtattca catccggaag ggatttctac aacatggcat tcagaatcta atttggatcg
     1981 ttttggatgc ccagtgcaca ccggtaatag ttcttattac agcggttttt atcatactga
     2041 tgtattaatt ccaggagaat taactaagga tgaaagattg ctccatgaaa tagaaaatag
     2101 tgatccaatg atcttcaact ggaatgtatt gttttatgtt tcattagaag agtttcctat
     2161 agatgatcct tattatggag agtttattgg tattcctgta gatgatgcat ctatgttttt
     2221 taactccttt caaccaagga aatttgaaaa caaacccctt tatgagaaag aggatgatta
     2281 atatgattaa aggaatgctt tttgcttttt tagcagcgtt ctcatggggg gcagctatcg
     2341 taatgagcaa aaaaggagtt gaagaactag atgccggagg ggtgtttttc tggcagattt
     2401 gtagtgcagt aatactatct tggatagttc tttttataaa aagaaaaaaa ctcccattaa
     2461 actcaaaagc gatacttgct tatgcgacag gcgtttttga accattctta gcgtatactt
     2521 ttacactcta cggactttat tttatttcag caggaagcgc atcaattatt ttttcacttg
     2581 aatcagtgtt tatattggtg ttgtctgttc ttatttgctc agttaaaatt aattccccgc
     2641 aatattttat attgttcctt ataggtgcaa ttgttggcag tattttggta gccttgccag
     2701 acatcagtaa tggatcgaat aatattgttg gatattgtct tgttgttgcc ggtgtgttat
     2761 cggcagcatt ttatgttgtt atatcgtctc gccttattaa atcgtttgag cctatcacat
     2821 tattgagcgg acagttgaca ttctccctta tactgtcatc gctctttatt tttatatcta
     2881 aatcatcaat ttatcttccg ttggaatccg tgattattgt tttttcatct ggaatattac
     2941 aatatttttt agctttttgt ttttacttga actccttgcg ttggctccca gttcatttgg
     3001 cagggataat gttgtacttt attccgctag ttgcattatt tttgtcatgg ttgtttttgg
     3061 atgaacaatt cacattctta cagggggtag gatttattgt aactgtgcta agtgtatatt
     3121 ttcttaacag aaaatactca gaggagtaac attctgttca ggattgcccc ccggcctcca
     3181 tcgataccgt gccaaatgca cgtaaaaaac gggagcgttt ctggtgtcgg aatgtaacca
     3241 agggggtcag aggcgcgcta aaacgctctc aggggagtca aatagagacg tttgtaacaa
     3301 aaagatcaaa ggatcctctt gagatccttt ttttctgcgc gtaatctgct gcctgtaaac
     3361 gaaaaaaccg ccttgcaggg cggtttgatc gaaggttaag tcagcttgca gactgcttaa
     3421 ccaggtaact gtcttatgcg agacgagtca ccaaaattgt tcttctagtg tagccgcact
     3481 ccggcagcca cttcaagtac tctctaaata tctcgcacat gacttttacc aatggctgct
     3541 gccagtggcg ctttgtggtg tcttttccgg gttggaccca agagaacagt taccggagaa
     3601 ggcgcagcag tcgggctgaa cggggggttc ctgcatacag cccagcccgg agcgaactgc
     3661 ctaagtcgcc ccgagatacc agaagacgtg agctatgaga aagcgccacg tgtcccgtaa
     3721 gggagaaagg cggaaaaggt atccggtaat cgatatggcg ggaacgtggg ggcgcaggag
     3781 ggagcgattc accggaaacg gtgatgatct ttaagccacg tcgggtttcg ccaccgctgg
     3841 cggatttcat ggttgagccg caaggctccc acagatgcac cgaaaaagtg tctgttttgt
     3901 gaagtccgtc aggggggcgg agcctatgga aaaagcgcct ccggcgcggc ctttcccggg
     3961 gtttcgtttt ttgcgcacat gttctttcct ggtttatccc cgggttctgt ggataacagg
     4021 gttagcgttt ttgagaaagg agagtccgct cgccgcagcc gaacgaccga gcgtagcgag
     4081 tcagtgagcg aggaagcgga agagcgcctg aactggcatt ttctccttac gcatctgtgc
     4141 ggcatttcac accggacatg gcgcactttt catacaatcc gcactgatgc cgaatggtta
     4201 agccagtata cactccgcta tcgctacgtg actgggtcag ggcttcgccc cgacacccca
     4261 aaggtcaacg gcctgacgcg ccctggcggg cttgtctgct cccggcatcc gctcacagac
     4321 aagctgtgac cgtctccggg agctgcatgt gtcagcggtt ttcaccgtca tccccgaagc
     4381 gtgcgaggca actgcggtaa agctcatcgg cgtggtcgtg aagcgattca cagatgtctg
     4441 cctgttcatc cgcgtccagt tcgttgagct tctccagcag cgttaatgtc tggcctctga
     4501 tgaagcgggc catgttaagg gctgtttttt cctgtttggt cactgatgcc tccgtgtaag
     4561 ggggggttct gttcatgggg gtaatgatac cgatgaaacg cgagaggatg ctcacgatac
     4621 gggttactga tgatgaacat gcccggttac tggaacgctg tgagggtaaa caactggcgg
     4681 tatggatgcg gcgggtctgc ctgggtgagc cggttgcccg ttccgggaag ctgccgacac
     4741 tggcaccgcc gttactgcgt cagctggccg ccatcgggaa taaccttaac cagacagcga
     4801 ggaaggtgaa cagcgggcag tggtcttccg gtgaccgggt tcaggtggtg gccgcactga
     4861 tgatcatcgg ggatgagctg cgccggctgc gtctggcggt cagggaacag ggggcgcggg
     4921 atgatagtta agtttcatgc caggggaaaa ggtggtggca gtggtccggt tgattacctg
     4981 ctgggaaggg ag
//
