LOCUS       NZ_CP023898             5162 bp    DNA     circular CON 14-JUN-2024
DEFINITION  Escherichia coli strain FDAARGOS_433 plasmid unnamed7, complete
            sequence.
ACCESSION   NZ_CP023898
VERSION     NZ_CP023898.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07312477
            Assembly: GCF_002589795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5162)
  AUTHORS   Croxen,M., Tallon,L., Sadzewicz,L., Ott,S., Zhao,X., Nagaraj,S.,
            Vavikolanu,K., Aluvathingal,J., Nadendla,S., Geyer,C. 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  JOURNAL   Unpublished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 5162)
  AUTHORS   Croxen,M., Tallon,L., Sadzewicz,L., Ott,S., Zhao,X., Nagaraj,S.,
            Vavikolanu,K., Aluvathingal,J., Nadendla,S., Geyer,C. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-OCT-2017) 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 :: SMRT v. 2.3.0, HGAP v. 3, SPAdes v. 3.6.0
            Genome Coverage                   :: 696.335x
            Sequencing Technology             :: PacBio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002589795.1-RS_2024_06_14
            Annotation Date                   :: 06/14/2024 04:40:22
            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)                     :: 5,097
            CDSs (total)                      :: 4,972
            Genes (coding)                    :: 4,693
            CDSs (with protein)               :: 4,693
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 279
            CDSs (without protein)            :: 279
            Pseudo Genes (ambiguous residues) :: 0 of 279
            Pseudo Genes (frameshifted)       :: 87 of 279
            Pseudo Genes (incomplete)         :: 190 of 279
            Pseudo Genes (internal stop)      :: 46 of 279
            Pseudo Genes (multiple problems)  :: 39 of 279
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP023898.1.
            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..5162
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_433"
                     /isolation_source="Rectal"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_433"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="Canada: BC"
                     /collection_date="2015-12"
                     /collected_by="BC Centre for Disease Control"
     gene            join(4832..5162,1..68)
                     /locus_tag="CRN16_RS01450"
                     /old_locus_tag="CRN16_01450"
     CDS             join(4832..5162,1..68)
                     /locus_tag="CRN16_RS01450"
                     /old_locus_tag="CRN16_01450"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(272..1186)
                     /locus_tag="CRN16_RS01455"
                     /old_locus_tag="CRN16_01455"
     CDS             complement(272..1186)
                     /locus_tag="CRN16_RS01455"
                     /old_locus_tag="CRN16_01455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271363.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            2918..3127
                     /locus_tag="CRN16_RS01460"
                     /old_locus_tag="CRN16_01460"
     CDS             2918..3127
                     /locus_tag="CRN16_RS01460"
                     /old_locus_tag="CRN16_01460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     gene            complement(3193..3726)
                     /locus_tag="CRN16_RS01465"
                     /old_locus_tag="CRN16_01465"
     CDS             complement(3193..3726)
                     /locus_tag="CRN16_RS01465"
                     /old_locus_tag="CRN16_01465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3729..4655)
                     /locus_tag="CRN16_RS01470"
                     /old_locus_tag="CRN16_01470"
     CDS             complement(3729..4655)
                     /locus_tag="CRN16_RS01470"
                     /old_locus_tag="CRN16_01470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          complement(273..1186)
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.909"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3733..4655)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acaggatatt acaggcactt aaggaactta agtacgatct ggagacatcc ccaaacccag
       61 acgcgtaagt gcctccatcc gtgttccgat tccctggtgc ttcctcgctc attcgctcgc
      121 tacgctcggt catgagactg cggcgagcac taccaccaca atcacgcgga aagccgcgcc
      181 attgcagggc tgaacgggga aaaacggcaa aaaacctgct gctcaaaaag acgccagaaa
      241 ggcgctgtta tctgatatag gcttatttgg tctactctac gagacctcgt tttttcagtt
      301 ggtaatacca ggcgcgactg atccctaatg cctcccacgg tttcagcgtg cgtgcagatg
      361 tagctactgt gctgcgctta gacttagaac cgcccttgcg accgcgtgca gcctgaattt
      421 ctggcgtgtg cgtatcagcc acatactgtg cgaaagtttc cggcgtgaag ttcctgtgcg
      481 tgtatttcgc aatgctcttg ccaatagccc gacattcagc cagtgaaagc ggaacgggaa
      541 gcgatgcatt gtacatttcg acacgctgga tcaccgcttc aagccactgt gagaacgctg
      601 gccagccctg acgaatcgcc ctgtaagccc atttgcgcgt catttcgaac aggtggcagt
      661 ttcgccccat cccgtaatgt ttatcgatgc tacgacgctc tgaggcgctc aaatcgagat
      721 aatcagccag ttcatcgagg gtataggctt cctcgcgcca ctccatcacc agccattcca
      781 ggtggaacgg atttttgcaa atcaggccgc tgtagttcac atccgcacaa agtttctcac
      841 acagcgaacg ttcaaccgct gcggcatatt tcagcgcctt aaccgaggca tcaggcgcgg
      901 ttctcacggc gatgttgagt gcgtagagca ggtgagcgtg tccgttcaca ggatttttaa
      961 cggtgatgtt cggcgcggga gcgttccggt cgctccagtc aatcgcagcc ccctcgcggt
     1021 caacgtcaaa aaccagccag aactgtgcat gaggctggtt ctgctggata taccgtgcaa
     1081 gaagcgcgcg ccctttgccg gagatacgaa ggccgaaagc gagatcatcc gtgtgatagg
     1141 gacggtgggg taaattttct tcgaagtatt gaagcgcggc gctcatgtgt tacgattcct
     1201 tccaggttat cgaccgacat cgcccctgta ttttcgtgaa agtcttggcg gatagacacg
     1261 aatttcaggg gcgtttgttt ttcagtcgct tacactaccc ccaacgacaa aacctgtcga
     1321 gccttcccgc aaatccgatc catttaccat aactcccgtt gtacgtacca tgtaaaacgc
     1381 cctcaatcgc tttctggcgc aaaaaacaca aaaagacaag aaaacaccag gccaaaccag
     1441 aaaaacgcgt cagaaacgtt ttcagggcgt tgcataacta tgcacgaaag cgatgtgcga
     1501 tcggtttcgt gcgttctgaa caccgaacgg ctcaaaacga caagttttct cccctggtgc
     1561 gtggcgctct gacggggttt cctgtttcca aacttcacat ctcgccagga caaaaaaaac
     1621 cgacctgggg tcggtggcaa gaatcagagt ctatgggaaa tattttagtt atcggatgct
     1681 caatattcac aaacgcaaaa aatgcctcag tgatgcccta aaacaacctt tccagaagga
     1741 gtccgcgctt tacgatgcac ggaagagata aaaaacccca caaaagtggg gaaccaagag
     1801 aaacaacaat tacaggttgt tggttgtgtt cgaacaacga tgaagtagct acgctaaata
     1861 ataattaccg tacaggccct acatattcaa cactaaattt aagatcctga cgaaggattt
     1921 ataaatgcac gaaaacacat agacagacaa attcactaaa ttcatacaca aaaacaagtg
     1981 tagttttcta agtaaattag attcgacaac caattagttt atccacatcg cattccactc
     2041 ttgctacacc aatcacattt cttgatatgt aatagcagaa aaaataaaac cagacaccaa
     2101 tagaccaaaa aacaaacatt caacaagaaa cattttgaac aatatcacaa aactgtcaca
     2161 accatcatca gactattgaa aaaaactggt tgctgtttta taaaagcgac tgtaacaacc
     2221 tccactctat agttccatta gtttaaagtg tcacacaaac tgagcatcca tttgttttcc
     2281 ttacttttgc ccctgtattc caaggggttt ttttataact taaagattag cacaccacac
     2341 aaaaacaata aaaaaacgac aagttataca ataaaaccag tactatccat acagctaatt
     2401 acatataaat actattaaac catctggaca ttaaaaataa actcttataa cataaaatta
     2461 atgcggttcc ggtaccatat gtcagggata atgtgcaaat ggaggtatcg gaactgcatt
     2521 tcagttcatt attaattaat gacaaaaaaa acctctgcga gcgcagaggg ggtaaggaat
     2581 gttcccggtc ataatatgtc gatagtgttt atatacatac agaacaagaa caacaaccag
     2641 ccaactaata aatattttat tttttagagc tgaaacctta aagctcactt ccattccata
     2701 cattgttata aaccttatgt tgaaaactga aagtaagtac ggcagactta ttaagttgcg
     2761 tgcagtcttt tcacgttata caaacaagaa cacctgcgaa gttatttctc cttacatatc
     2821 cccctatgcc aacgggggat tttttctggt tcactaacgc ataaataata gtgacaccct
     2881 atcattcaca aaccgtgata atataaggat tatcatcatg gcaaaattag gtgaaaacac
     2941 cccacatatt atcgatgcta ctgtagattt tatggcatca agccaggcat ttcgtgagta
     3001 tctgaaaaaa cttccccctg ataacacaat accgccagct cttactgatg agcacgtacc
     3061 gttatatata cgaaggctgg aatactatcg tctgctttat cgaccaaagc agacagaatc
     3121 atattgaaaa aaacggtgaa cggttcgcga aatcctttcg cgggtcgtga ggcgttggac
     3181 aagcgaagcg cgtcagtttt tccggctctt ccccgtgaca ggtttctcca ccagtttatc
     3241 ttccagtgtc acaactttct gatacaccgc cgctgtggcg ttgtagttcc tgtcgagtat
     3301 tgttttcatt ccccatccga gcacacagaa cataaccaga aaagccactg acaccccacc
     3361 cagccatttc cagctatacc ctttaagggt gttgtattcc tgcacgatat tgctgtgaat
     3421 tgtcgcaata tccctgttca gggcatccgc gtttgccttc atgtttgcga ctgactcttc
     3481 cagccgctga aaatcctggc tgatgcgctc acctatcagt cctgccacgt ccagcttctg
     3541 cacctcattt ctgacttcat ccctgacctg ttttgccaca ccgtcagaaa tatcccgata
     3601 tccgcgaaga gtttcccttg ccacagccag agaatcagca acagctttct gttgctccat
     3661 tgcggtatgt tgcagatgct ccaccgataa caggagcgtg agtaattttt cttctgtgct
     3721 ggccatgttc agaatcccat agaaaatcca cgtgacggtg atttaacccg ttcaggtgca
     3781 gttcggttct gtctgctcac tctgtctctc atgtcaaagc catgctcccg cgcaacatca
     3841 tgttgcagcc ttctgaccag ttcatgttgc ttaaccggag tgtccagcca ttccctgatg
     3901 tcatgcccga ccgttcgcgc ctgttcaaga tggcgggaat agtccggttc agaccgtttt
     3961 tgcatgatgt catgacgctg ggcatcatca agccgtccgg cagcttcaaa acccagatgc
     4021 acttcgggac gtcgttcaat gccctgttct ttcagcgtcc ggcagtcaat gaagcccctt
     4081 tcaaagccat gctttctcat atgttcgttg tgcttcacct cccagcgttt tcgcaattcc
     4141 cgcaactgct ctttttgctg agtgagagtc aggcttccgg aatccttttt cgcacctccc
     4201 cgctcgggat acctggcgtt atagcgccgg aaatactgtt ccggtgtacg ttcaatgcca
     4261 tcattcacac gctgactcat catgatatgc gcatgaggct gttcgccgcc gtcaatgctc
     4321 gctttcggat tgtgaatggc aaaactccag gcgtgccgtt cgccagcttc ctgacgtaca
     4381 aaatcctgca ccagttcaag gcgctgttcc ggtgtcagtt cacggggtaa tgcaatttca
     4441 agttccctat aggtcgaacc gttcgcacgt tcaaactggt cagccgcctg ccagaaatgg
     4501 gaaggattat ccctggccca ttccggcatg tttccgtgtg cggaatattc caaatcctga
     4561 cggtcgcggt atttctcttt gcgctcgatg taatcggcgt ggtttgcagc ctgccccttg
     4621 ccaccaaatt taacgctgag gtgataggtt gccacggttt cagccctctg caggagcgca
     4681 ctgtttctcg acgaaggaga gaaacatata agtgcgcttc cttctaattt tacgaattag
     4741 cacggaagat accccctgca cccgccgacc gcaagcgata tactgcacga ccacaacaca
     4801 ccgcaaaaaa acaccaggga gcatcacgaa catgcgcatc agcaacatcg aatggctgaa
     4861 gaaacggatc ggattcatca ggaagctcgg agaacagacc gcacgacaga gacagattat
     4921 tgacctgatc gacaacgaag ccggactcac agaacaggaa cgcaaacttc tccacgtact
     4981 ggcaacagcg gaaaaaaacg acttacaggc acaggagagc gaacgaaaac aggcggtcca
     5041 aaaacgaatc gagggaaaaa aacaacgacg ggaacgcaat caccggctct ttctcgcggc
     5101 tgggctactg atcgaagcag gactggtaga cacaaaaaca ggcgagctat gctataaaaa
     5161 ag
//
