LOCUS       NZ_CP070166             5221 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1283 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP070166
VERSION     NZ_CP070166.1
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 5221)
  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  JOURNAL   Unpublished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 5221)
  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
            CP070166.1.
            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..5221
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1283"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1283"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(3855..5221,1..199)
                     /locus_tag="I6K13_RS25785"
     CDS             join(3855..5221,1..199)
                     /locus_tag="I6K13_RS25785"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_116965634.1"
                     /translation="MIVKFHARGKGGGSGPVDYLLGRERNREGATVLQGNPEEVRELID
                     ATPFAKKYTSGVLSFAEKALPAGGREKVMASFERVLMPGLEKNQYSILWVEHQDKGRLE
                     LNFVIPNMELQSGKRLQPYYDRADRPRIDAWQTLVNHHYGLHDPNAPENRRILTLPDNL
                     PETKQAFAEGVTRGIDALYHAGEIKGRQDVIQALMEAGIEVVRVTRSSISIADPNGGKN
                     IRLKGAFYEQSFTDGRGVREKAERESRIYRENAERRVQEARRICKQGCDIKRDENQRRY
                     SPVHSFDRGITEKTPGRGERGDDAAQEGRVKAGREYGHDVTGDGHFPVYREWRDALVSW
                     RDDTGEPGRNQKAERESGEAEREDMGRALSRGEQRTFSGVARGDESRNELDDGKRETEC
                     RKAGTGVTEHDGAGKTFAERLRATATGLYAAAERMGERLRGIAENVFAYATGQRDAERA
                     GHAVESAGAALERADRTLEPVIQREQEIRDERLIQEREHALSLERERQPEIQERTLDGP
                     SLGW"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(637..933)
                     /locus_tag="I6K13_RS25285"
                     /old_locus_tag="I6K13_25280"
     CDS             complement(637..933)
                     /locus_tag="I6K13_RS25285"
                     /old_locus_tag="I6K13_25280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679964.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001679964.1"
                     /translation="MSKTKSGRHRLSKTDKRLLAALIAAGYEERTARDLIQKHVYTLTQ
                     ADLRHLVSEISNGVGQSQAYDAIYQARRIRLARKYLNGKKPEEGLNAWKGDLP"
                     /name="hypothetical protein"
     gene            1145..1342
                     /locus_tag="I6K13_RS25290"
                     /old_locus_tag="I6K13_25285"
     CDS             1145..1342
                     /locus_tag="I6K13_RS25290"
                     /old_locus_tag="I6K13_25285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335786.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001335786.1"
                     /translation="MKEEKVLLHRFLFVVRNKNGCELSCSADLMGTRDDVYKYFSDSVS
                     GLDVELIDVSCESEWEEHSH"
                     /name="hypothetical protein"
     gene            1360..1644
                     /locus_tag="I6K13_RS25295"
                     /old_locus_tag="I6K13_25290"
     CDS             1360..1644
                     /locus_tag="I6K13_RS25295"
                     /old_locus_tag="I6K13_25290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000625497.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin Z C-terminal domain-related protein"
                     /protein_id="WP_000625497.1"
                     /translation="MISQNVWAPPFFFGPWVELENHTGDIAYTVYFDTLSNVPGPFIAF
                     IWYAPNGPRTVNVIGPASYQISCKGAGVDKIKFKSVSGTGQIIHVYTTL"
                     /name="colicin Z C-terminal domain-related protein"
     gene            complement(1708..2097)
                     /locus_tag="I6K13_RS25300"
                     /old_locus_tag="I6K13_25295"
     CDS             complement(1708..2097)
                     /locus_tag="I6K13_RS25300"
                     /old_locus_tag="I6K13_25295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679965.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001679965.1"
                     /translation="MFKSSVKSITSSTILTLLIGCSSTETNKNIVYKVGGDSIILNKYC
                     ILKMYPSQSEKNKGVIIEVNTDSLCKKKLNEITSKNIGKPLISYFDGKVISQPAIIHSA
                     LNLTHYYQPVNDETTVMEIIKAYSK"
                     /name="hypothetical protein"
     gene            2946..3134
                     /locus_tag="I6K13_RS25305"
                     /old_locus_tag="I6K13_25300"
     CDS             2946..3134
                     /locus_tag="I6K13_RS25305"
                     /old_locus_tag="I6K13_25300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001441803.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_249489876.1"
                     /translation="MDNRITAFECADTARRSRTTERSESVSEEAEEHRHLHVLLTHLCD
                     ISHPAWCTFHTIRTDAA"
                     /name="hypothetical protein"
     gene            complement(3287..3478)
                     /locus_tag="I6K13_RS25310"
                     /old_locus_tag="I6K13_25305"
     CDS             complement(3287..3478)
                     /locus_tag="I6K13_RS25310"
                     /old_locus_tag="I6K13_25305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_116965635.1"
                     /translation="MTKQERTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3542..3865
                     /locus_tag="I6K13_RS25315"
                     /old_locus_tag="I6K13_25310"
     CDS             3542..3865
                     /locus_tag="I6K13_RS25315"
                     /old_locus_tag="I6K13_25310"
                     /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="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000956005.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGRLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGTR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          3114..3201
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.876"
                     /coverage="100.0"
                     /evalue="3.19e-37"
     Typing          complement(2545..3098)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.705"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3856..5219
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.363"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 acgagcgggt catgcagttg agtcagcagg tgcagcactt gagcgagcag acagaacgct
       61 tgagccagtt atacagcgag aacaggagat aagggacgaa cggctgatac aggaacgcga
      121 acatgcgtta tccctggagc gtgagcgcca gccggaaata caggaacgga cactggatgg
      181 cccttcgctg ggatggtaat cagagacagg ctaaaatgtt gtcagcgcgt ttccggtgca
      241 ttttttggga taatggttgg ttcgggggca ccgggaacgc gcttcagtca gaccttgctg
      301 aaaacacagg aacgcgttaa aacgcatacg ggcgcgattc tggtgtgtct tttgttgctg
      361 tgttttgcct ctattgccag atcgcgctca ttcccctgaa cttctgtttt cccgctccgg
      421 tccccgtctt cttcgcttcc gaaagcatga aaaaaatccg tttcagctgt ctctggctgg
      481 caattcctgc gtgattcaca tggctgcata gctatgcatg tggttaaaat ttaccgggtg
      541 cgatcgcggc agtttttcgg ggggtttgtt gccattttta cctgtctgct gccgtgatcg
      601 cgccgaacgc gtttcagcgg tgcgtacaat gagacgttat ggtaaatcac ccttccaggc
      661 gttcagccct tcttccggtt tttttccgtt caggtattta cgggcgagac gaatgcgtct
      721 tgcctggtaa atcgcatcgt aggcctgtga ctgtcccaca ccgttactga tttcactgac
      781 cagatggcgc aggtcggcct gtgtcagtgt gtaaacgtgt ttctggatga ggtcacgggc
      841 tgtccgctct tcgtatccgg cagcgataag tgcagccagc aggcgtttgt ctgttttgct
      901 cagtcggtgg cgaccagatt ttgttttgct cacgttatct cctctctgtt ttttctcctg
      961 atgttatccg gtgctgtttt tctgctgcga atcttccctt cctgattttt ataagagtga
     1021 ttcagatcac aaaaatgaaa attcatatca ttgacaggaa aaataatgcg gcgtaattta
     1081 tgctgtatat aaaactagtg tttatatata cagtatattc tgtgtaaata aagggaggga
     1141 taaaatgaaa gaagaaaaag tattgcttca ccgtttctta tttgtagtta ggaataagaa
     1201 tggttgtgaa ctatcatgtt cggcagacct tatgggaaca agggatgatg tttataagta
     1261 tttctctgat tctgttagtg ggctagatgt tgagcttata gatgtttctt gcgagagtga
     1321 atgggaagaa cattcgcatt gaactaatca ggagattata tgatttctca aaatgtttgg
     1381 gctcctcctt tcttttttgg tccttgggtt gaacttgaaa atcatactgg tgatatcgcg
     1441 tacactgtct attttgatac attgtctaat gtacccggtc catttattgc ttttatctgg
     1501 tatgccccta atgggccaag aacagttaac gttattggtc cagcatctta tcagatctct
     1561 tgcaagggcg ctggtgttga taaaattaaa tttaaaagtg tcagtgggac agggcagatt
     1621 attcatgtat acactacctt ataataagag ctgaatagat ataatcctgc ctaagctata
     1681 ccttaagcag gattatatct attaatatta ttttgaatat gcttttatga tttccatcac
     1741 tgttgtttca tcgttcacag gttgataata atgggttaga tttagtgcag aatgaatgat
     1801 tgcaggttgg gatattactt ttccatcaaa atatgaaatc aggggtttcc ctatattttt
     1861 actagttatt tcgtttagtt ttttcttaca taaactatct gtgtttactt ctattatgac
     1921 gcctttgttt ttttctgatt gggaagggta cattttaagt atgcaatatt tattcagaat
     1981 gatgctgtca cctccaactt tgtaaacaat gtttttgttt gtttcagtac ttgaacatcc
     2041 tataagtaag gtcagtatag tactcgatgt tattgacttt actgatgatt tgaacatatt
     2101 aactccattt tattttgtta aaattccaat ctataaatac atatacacgt aaaaataaac
     2161 aatgcgaacg ttttcactta tattatcccc atgatgtgat tgaatggtgg ttccatataa
     2221 gagagggcaa ttatactatc tttctctcct gaactgatgg gattgcagtt tagagaaaaa
     2281 agatcaaagg atcttcttga gatccttttt ttctgcgcgt aatctgctgc ctgtaaacga
     2341 aaaaaccacc ctggcaggtg gtttttcgaa ggttagctaa tcctggcaga ttacctaacc
     2401 gggtagctgg cttaagtgga gcacagatac caaaagatgt cctttcagtg tagccgctat
     2461 aaggcttcaa cttcaagagt tctgcgtatc taaatccact ttttagttac caatggctgc
     2521 tgccagtggc gttaagtcgt gtcttaccgg gttggactca agacgatagt taccggataa
     2581 ggcgcagcgg tcgggctgaa cggggggttc gtgcacacag cccagcttgg agcgaacgac
     2641 ctacaccgaa ctgagatacc tacagcgtga gctatgagaa agcgccacgc ttcccgaagg
     2701 gagaaaggcg gacaggtatc cggtaaacgg taaggtcgga acaggagagc gcacgaggga
     2761 gcttccgggg ggaaacgcct ggtatcttta agtcctgtcg ggtttcgcca cctctgactt
     2821 gagcgtcgat ttttgtgatg ctcgtcaggg gggcggagcc tatggaaaaa gcgcctccgg
     2881 cgcggccttt tccggggttt ttgttttttg ctcacatgtt ctttccggcg ttatctcctg
     2941 attgtgtgga taaccgtatc accgcttttg agtgcgcaga caccgctcgc cgcagccgaa
     3001 cgaccgagcg cagcgagtca gtgagcgagg aagcggaaga gcaccggcat ttgcatgttc
     3061 tccttacgca tctgtgcgac atttcacacc ctgcatggtg tacttttcat acaatccgca
     3121 ctgatgccgc atgactaagc cagtatacac tccgctgtcg ctacgtgact gggtcatggc
     3181 tgcgccccga cacccgctaa aaccccgctg acgcgccctg acgggcttgt cggctcccgg
     3241 catccgctca cagacaagct gtgaccgtct ccgggagctg catgtgtcag aggttttcac
     3301 cgtcatcccc gaagcgagcg aggcagctgc ggtaaagctc atcggcgtgg tcgtgaagcg
     3361 attcacagat gtctgcctgt tcatccgcgt ccagttcgtt gagcttttcc agcagtgtta
     3421 atgtctggct tctgataaag cgcgccatgt taagggcggt tctttcctgt ttagtcactg
     3481 atgcctccgt gtaaggggga tttctgttca tggggtaatg ataccgatga aacgcgagag
     3541 gatgctcacg atacgggtta ctgatgatga acatgcccgg ttactggaac gctgtgaggg
     3601 taaacagctg gcggtatgga tgcggcgggt ctgcctgggt gagccggttg cccgttccgg
     3661 gaggctgccg acactggcac cgccgttact gcgtcagctg gccgccatcg ggaataacct
     3721 gaatcagaca gcgaggaagg tgaacagcgg gcagtggtct tccggtgacc gggttcaggt
     3781 ggtggccgca ctgatggcca tcggggatga gctgcgccgg ctgcgtctgg ccgtcaggga
     3841 acaggggacg cgggatgata gttaagtttc atgcccgggg aaaaggcggt ggcagtggtc
     3901 cggttgatta cctgctggga agggagcgaa accgggaagg ggcaacggtg cttcagggta
     3961 atccggaaga agtccgggaa ctcatcgatg ccacgccatt tgcgaagaaa tacacgtccg
     4021 gtgttctctc gttcgcggag aaggcgctgc cagcgggagg acgtgaaaaa gtgatggcga
     4081 gttttgagcg tgtactgatg cccggtctcg aaaaaaatca gtacagcatc ctgtgggtgg
     4141 agcaccagga caagggacgg cttgagctga attttgtcat tccgaacatg gagctacaga
     4201 gcggaaaacg cctccagccg tactacgacc gggcagacag gccgagaatt gatgcctggc
     4261 agacgctggt taatcaccat tacgggctgc atgaccccaa cgccccggag aaccgccgga
     4321 tactgactct ccctgataac ctgccggaaa cgaaacaggc gtttgctgag ggcgtcacac
     4381 gcgggataga cgcgctttac catgccggag agataaaagg ccgtcaggat gtgattcagg
     4441 cgctcatgga agcagggatt gaagtggtca gggtgacgcg aagcagtatc agcattgcag
     4501 acccgaacgg cgggaagaat atcagactga aaggagcatt ctatgagcaa tcttttacag
     4561 acgggcgcgg agttcgagaa aaagctgaaa gagagagccg aatctacaga gaaaatgctg
     4621 aacgacgagt tcaggaagct cggcgaatct gtaagcaagg ctgtgacatc aaacgagacg
     4681 aaaatcaaag acgctatagc cctgttcaca gcttcgacag aggaatcact gaaaaaacac
     4741 cgggaagggg tgaaagaggc gatgatgcag cacaggaagg acgtgttaaa gctggcaggg
     4801 aatacgggca tgatgttact ggggatggtc attttcctgt ttaccgtgag tggcgggacg
     4861 ctctggtatc ttggcgggat gatacaggcg aacctggaag aaatcagaaa gcagaacgag
     4921 agtctggaga agctgaacgc gaagacatgg ggcgtgcgtt atcacgaggg gagcaacgga
     4981 cgttttctgg tgttgcccga ggggatgaaa gccgaaacga actggacgat ggaaaacggg
     5041 aaacagaatg ccgtaaggct ggtacaggag taacagagca tgacggagct ggaaagacat
     5101 ttgctgaacg ccttagagca actgcaacag gactatatgc agcggctgaa cgaatgggag
     5161 agcgccttcg tggaattgca gaaaatgttt tcgcttacgc aacgggacaa cgcgatgctg
     5221 a
//
