LOCUS       NZ_CP029121             3174 bp    DNA     circular CON 16-JUN-2024
DEFINITION  Escherichia coli strain AR435 plasmid unnamed8, complete sequence.
ACCESSION   NZ_CP029121
VERSION     NZ_CP029121.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07291528
            Assembly: GCF_003073835.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3174)
  AUTHORS   Benahmed,F.H., Lutgring,J.D., Yoo,B., Machado,M., Brown,A.,
            McAllister,G., Perry,A., Halpin,A.L., Vavikolanu,K., Ott,S.,
            Zhao,X., Tallon,L.J., Sadzewicz,L., Aluvathingal,J., Nadendla,S.,
            Voskania-kordi,A., Simonyan,V., Patel,J. and Shawar,R.M.
  TITLE     FDA/CDC Antimicrobial Resistant Isolate Bank Genome Sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3174)
  AUTHORS   Benahmed,F.H., Lutgring,J.D., Yoo,B., Machado,M., Brown,A.,
            McAllister,G., Perry,A., Halpin,A.L., Vavikolanu,K., Ott,S.,
            Zhao,X., Tallon,L.J., Sadzewicz,L., Aluvathingal,J., Nadendla,S.,
            Voskania-kordi,A., Simonyan,V., Patel,J. and Shawar,R.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-APR-2018) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, Silver
            Sring, MD 20993-0002, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 2.3.0; HGAP v. 3.0; SPAdes v. 3.6.0
            Genome Coverage                   :: 14.36x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003073835.1-RS_2024_06_15
            Annotation Date                   :: 06/15/2024 04:07:09
            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)                     :: 5,275
            CDSs (total)                      :: 5,152
            Genes (coding)                    :: 4,858
            CDSs (with protein)               :: 4,858
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 294
            CDSs (without protein)            :: 294
            Pseudo Genes (ambiguous residues) :: 0 of 294
            Pseudo Genes (frameshifted)       :: 107 of 294
            Pseudo Genes (incomplete)         :: 192 of 294
            Pseudo Genes (internal stop)      :: 63 of 294
            Pseudo Genes (multiple problems)  :: 61 of 294
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP029121.1.
            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..3174
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AR435"
                     /db_xref="taxon:562"
                     /plasmid="unnamed8"
     gene            284..478
                     /locus_tag="CSC22_RS28040"
                     /old_locus_tag="CSC22_0012"
     CDS             284..478
                     /locus_tag="CSC22_RS28040"
                     /old_locus_tag="CSC22_0012"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001485273.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1314..1742)
                     /locus_tag="CSC22_RS28055"
     CDS             complement(1314..1742)
                     /locus_tag="CSC22_RS28055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(1706..1876)
                     /locus_tag="CSC22_RS28740"
                     /old_locus_tag="CSC22_0015"
     CDS             complement(1706..1876)
                     /locus_tag="CSC22_RS28740"
                     /old_locus_tag="CSC22_0015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            2034..2462
                     /locus_tag="CSC22_RS28060"
     CDS             2034..2462
                     /locus_tag="CSC22_RS28060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2851..3174)
                     /gene="mobA"
                     /locus_tag="CSC22_RS28065"
                     /old_locus_tag="CSC22_0016"
     CDS             complement(2851..3174)
                     /gene="mobA"
                     /locus_tag="CSC22_RS28065"
                     /old_locus_tag="CSC22_0016"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_052584083.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQVIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          complement(10..249)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          514..1039
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.03"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          complement(2855..3174)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="2.59e-61"
ORIGIN
        1 aaaacatggc tccgtatctg acatgggtgt cggggcaaag ccctgaccag ggtaattgta
       61 atagcgtgca tgtatgcgcg gtataacaat tacacatcct gtcctgtcag caagttcgaa
      121 ttaccgacaa aggcacggca gttttttggc agtgacagtg ttgtctgaca gaaatgcccg
      181 tcaaagagtc agacagcaga ataccgacgg taaaacagtc gaaaagtggt acgcgatata
      241 atcacacaac gcagatgaca gaaagaacgg agaaaacaga aagatgaaca agcagcagca
      301 aaccgtactc aacatggcag gattcataaa aagccagagc ctgacgctgc tcgaaaaact
      361 ggacgcactt gatgctgacg aacaggccgc catgtgtgag aagctgcacg aactcgcgga
      421 agaacttcag aacagcatac agacacgctt tgaagcggaa aatcttaccg ggatataacg
      481 catccggaca ggatgcagaa cggcatagag gagcgtaagg agaaaatgtc acataaggcg
      541 ctcttccgct tcctcgctca ctgactcgct acgctcggtc gttcgactgc ggcgagcggt
      601 gtcagctcac tcaaaggcgg taatacggtt atccacagaa tcaggggata acgccggaaa
      661 gaacatgtga gcaaaaagcc gaagccaggg acaaaggccg cgccgttggc gtttttccat
      721 aggctccgcc cccctgacga gcatcacaaa aaccgacgct caagtcagag gtggcgaaac
      781 ccgacaggac tataaagata ccaggcgttt ccccctggaa gctccctcgt gcgctctcct
      841 gttccgaccc tgccgcttac cggatacctg tccgcctttc tcccttcggg aagcgtggcg
      901 ctttctcata gctcacgctg ttggtatctc ggttcggtgt aggtcgttcg ctccaagctg
      961 ggctgtgtgc acgaaccccc cgttcagccc gaccgctgcg ccttatccgg taactatcgt
     1021 cttgagtcca acccggtaag acacgactta acgccactgg caacggccac tggtaagcag
     1081 gatgtgcgag agatgtaacg agagttcttg aagtggcggc ctaactgagg ctacactgaa
     1141 aggacagtat ttggtgacat gtctcgcaca agactgttac cacggttaga gaatctgcca
     1201 ggattaacta accttcgaaa aaccacctgc cagggtggtt ttttcgtttt tacaatagtg
     1261 agattacgac gagactgaat gaatctcaag atttcattta gcctgccgct cgatcattca
     1321 aagttttgag gtagcttcat tgggtcatgg tatccaagct ctaaaagctt tatatggttc
     1381 ggtgtcagcc gctggaaatg aataacccag tcagaaacct tgtatttccc atgaaacgta
     1441 tctttaaaaa ccggatcgcc taaatgagca tgccataatt tgttagctct agcatacttc
     1501 tcaatagctt ctttgttttc gtaatgatca ggcactttcc acgatggcga tactttgcca
     1561 gtccaagctg gatatccttt taaaggatcg ccaaagagat tgtatttttc aaaatgctca
     1621 atgaaatcat cgattttatc gagtgttttt gcagaatatc tggatgtgta ataaaggttg
     1681 aaggtctcag agaatgagac aatattcaat tgtggatttt gcgcgcctgc tccgctgccc
     1741 atgctcttct ctgctcccga cttagaccag atggcattgt aacagacttc tcattcgctc
     1801 tggaaatcaa cagagacaag gatacgccaa aaacctcaat atctttaaca agatcatgac
     1861 gttgttcggt tttcatatcg ctaactccgt atctaattca ggcaggaaaa aatcttttcc
     1921 tcgttttcag agtagtcttt tttggttgca caataatggc gctagtgtca ccctattcat
     1981 atgaatatac catataatat atactttaaa tattttgggg cttaggaaaa tcaatgactt
     2041 actccgttaa gaataaatgg aaagctggcg gtttgtctct tggctggaca gcagtgccta
     2101 ccgtattgtt ttttatacaa aacgagaaaa agctaacttc agtggccttt aacacactac
     2161 ttaacctgat cgttcactgg tggagtttgc aagagtggcc gcatccgtca atggaaagtc
     2221 tagccatacg tatgggggtt tctgtacgga ctgttcagag agctatcaat gatcttgaaa
     2281 aagctaatct cttggacaag aaaccaacat cgaagagtga tcgccgatat ggtggtcgca
     2341 atatttatga tctaacaaag ctagttgact acctagatac aatgggtcca tcagtagctg
     2401 aacaagttaa gaaaccacgc cataaaaaac cggtatatac cgtaagaaaa acgacagctt
     2461 aaaaaagcac aatggaactg agcgcgagcg atgcacgata gcaaaacgat atattactta
     2521 ttgcattggt cttggtagcc ctgcttctgg ctaaaccact gtcaggagta attggctttg
     2581 cctgtaatgg gttcatcgct tcacagttaa agttatcgca tagctcatat atttaccata
     2641 atcccttaat tgtacgcacc actgaaacgc gctgaacgcg attctgacgc agacaccgca
     2701 aaaagagatg ttttaccccg gaaaaacagg aaggatgcgt caggatcgtt ttcagctcgc
     2761 tgcatagcta tgcatgaaag cgaatggtga tcactttggg agcttacggt gttcataccg
     2821 tcagttttcg acagttttct ctccgggaag ctaatctgcc ataagcctgg ataacagggc
     2881 acggtgatac tccgtaatag cgatcagcac ctccgcatac tccctgtccc cgacacgctt
     2941 gccgtcgata aagagttttt tctgtaacgc ccccagtctc ataacttctt tcagtacccg
     3001 atcatcagtc agtgagttaa ctttcttacc gagagctgcc gcccgtaaaa aaccggaaac
     3061 ggtcttgccg cattcagcag ccctttttct gattacctgg tcttcttctg ccgtcagacg
     3121 aacagggcga ctgatagccc gcctgcgcgt attacttcca cttcgttttg tcat
//
