LOCUS       NZ_CP029120             6172 bp    DNA     linear   CON 16-JUN-2024
DEFINITION  Escherichia coli strain AR435 plasmid unnamed7.
ACCESSION   NZ_CP029120
VERSION     NZ_CP029120.1
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 6172)
  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  JOURNAL   Unpublished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 6172)
  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
            CP029120.1.
            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..6172
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AR435"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
     gene            complement(524..673)
                     /locus_tag="CSC22_RS28735"
                     /old_locus_tag="CSC22_0002"
     CDS             complement(524..673)
                     /locus_tag="CSC22_RS28735"
                     /old_locus_tag="CSC22_0002"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001138880.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            1244..1402
                     /locus_tag="CSC22_RS29560"
     CDS             1244..1402
                     /locus_tag="CSC22_RS29560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032287700.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="hypothetical protein"
     gene            1862..2677
                     /gene="sul2"
                     /locus_tag="CSC22_RS28010"
                     /old_locus_tag="CSC22_0004"
     ARG             1863..2674
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            2738..3541
                     /gene="aph(3'')-Ib"
                     /locus_tag="CSC22_RS28015"
                     /old_locus_tag="CSC22_0005"
     ARG             2739..3538
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            3541..4377
                     /locus_tag="CSC22_RS28020"
                     /old_locus_tag="CSC22_0006"
     CDS             3541..4377
                     /locus_tag="CSC22_RS28020"
                     /old_locus_tag="CSC22_0006"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="WP_000480968.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            complement(<4484..4888)
                     /locus_tag="CSC22_RS28025"
                     /pseudo=""
     CDS             complement(<4484..4888)
                     /locus_tag="CSC22_RS28025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /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="IS91 family transposase"
                     /name="IS91 family transposase"
     gene            complement(4932..5321)
                     /locus_tag="CSC22_RS28030"
     CDS             complement(4932..5321)
                     /locus_tag="CSC22_RS28030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000102614.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            5539..5979
                     /locus_tag="CSC22_RS28035"
     CDS             5539..5979
                     /locus_tag="CSC22_RS28035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011161230.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005119689.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="hypothetical protein"
     ARG             3542..4374
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(709..882)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          806..1411
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cttcccatcc gaaaacggtg aacggggacg caatttattg cgtggccgtg aagcgttgcc
       61 ggcgcagccg gaaaacccgc tgtcagcacg ttcaggaagg gggtgatgta caaatggcac
      121 agaggatgaa agtgacgtat gagctgaagg aatgatgtaa aagtgatgta taagtgatgt
      181 aaaagtgatg tatgaactga aggagcgatg taattctgta gtcaggaaga ataacccgtt
      241 catgcaggca tgaacgatac agtgaggaac gctttttttg tcacgatctc cccttaacct
      301 gcgtaaatca cccgccatgg ttgattattt ttcaacctca aaatggtcat acacctaacg
      361 cagccgcgat tttcatcgca actgcatgaa ttaaaagaaa aaaaaggaat atttcgtttt
      421 cacgagtaat acccgggtat taaaaatcca ctgtaattac atgaaaataa agaaataaaa
      481 ggtaataccg gagtattacc acgtacgcgg gcaagcgaaa aagctataac gcttcccggc
      541 cgacaggcga cccaaaatcc acaggggcat gcaggttctc ttcagtaacc tgcgccatta
      601 aatcaaaaag gtcatattcg ccgggaagct gcgtatcagt cgaatccagt tgttcatcat
      661 attcagatgg catggggtga tatccagtag ctgagaggtt gttagcgggt ttcggggcgc
      721 agccctgaac cagtcatgta gcgctagcgg agtgtatact ggcttactat gttgccacga
      781 ttgcgaaaat cagtgaagtg cttcatgtgg caggagaaaa aaggcagcac cggcgcgtca
      841 gcagaatatg cgatacagga gatattccgc ttcctcgctc actgactcgc tacgctcggt
      901 cgttcggctg cggcgagcgg taccggctta cggacgggga cggaaatttc ctggaagata
      961 ccaggaagac acttagcaaa gaagagataa ggccacggcg aagccgtttt tccataggct
     1021 ccgcccccct gacaagcatc gcaaaatctg acgctcaaat cagtggtggc gaaacccgac
     1081 aggactataa agatcccagg cgtttccccc tggtagctcc ctcgtgcgct ctcctgttcc
     1141 tgcctttcgg tttaccggtg tcattccgct gttatggccg cggtttctca ttccacgcct
     1201 gacactcagt tccgtgaagg cagttcgctc caagctggac tgtatgcacg aaccccccgt
     1261 tcagtccgac cgctgcgcct tgtccggtaa ctatcaactt gagtccaacc cggaaagaca
     1321 cgacaaaacg ccactggcag cagccattag taacaggagt gcacgagaag atagattaag
     1381 aggtcttgaa gtagaggcct gactgcggct acactgaaag aacagttttg gtaatggcgg
     1441 tctcgtgaac cctgttaccg ggttaagcag ttccccaact gacttaacct tcgaacaaac
     1501 cgcctcccca ggcggttttt tcgtttacag agcaagagat tacgattcat tgaaaaggat
     1561 ctcaagaaga tcctttgtag attactatca attaatcttc cgaacatgac accagtcact
     1621 gttgattacg gttaaaccgc tccgtaacag gtttccctcg tattggtgac ttgcagcacc
     1681 aaagaagcaa aaaagataaa tatatctact tattgagaga tgatatattt atttccaaaa
     1741 tgctacagat acatcatcat gaaacggatc accgcaaaca ggttactcgc ctggggattc
     1801 cctttcgacc cgagcatccg tatgagactc atgctcgatt attattatta tagaagcccc
     1861 catgaataaa tcgctcatca ttttcggcat cgtcaacata acctcggaca gtttctccga
     1921 tggaggccgg tatctggcgc cagacgcagc cattgcgcag gcgcgtaagc tgatggccga
     1981 gggggcagat gtgatcgacc tcggtccggc atccagcaat cccgacgccg cgcctgtttc
     2041 gtccgacaca gaaatcgcgc gtatcgcgcc ggtgctggac gcgctcaagg cagatggcat
     2101 tcccgtctcg ctcgacagtt atcaacccgc gacgcaagcc tatgccttgt cgcgtggtgt
     2161 ggcctatctc aatgatattc gcggttttcc agacgctgcg ttctatccgc aattggcgaa
     2221 atcatctgcc aaactcgtcg ttatgcattc ggtgcaagac gggcaggcag atcggcgcga
     2281 ggcacccgct ggcgacatca tggatcacat tgcggcgttc tttgacgcgc gcatcgcggc
     2341 gctgacgggt gccggtatca aacgcaaccg ccttgtcctt gatcccggca tggggttttt
     2401 tctgggggct gctcccgaaa cctcgctctc ggtgctggcg cggttcgatg aattgcggct
     2461 gcgcttcgat ttgccggtgc ttctgtctgt ttcgcgcaaa tcctttctgc gcgcgctcac
     2521 aggccgtggt ccgggggatg tcggggccgc gacactcgct gcagagcttg ccgccgccgc
     2581 aggtggagct gacttcatcc gcacacacga gccgcgcccc ttgcgcgacg ggctggcggt
     2641 attggcggcg ctgaaagaaa ccgcaagaat tcgttaactg cacattcggg atatttctct
     2701 atattcgcgc ttcatcagaa aactgaagga acctccattg aatcgaacta atattttttt
     2761 tggtgaatcg cattctgact ggttgcctgt cagaggcgga gaatctggtg attttgtttt
     2821 tcgacgtggt gacgggcatg ccttcgcgaa aatcgcacct gcttcccgcc gcggtgagct
     2881 cgctggagag cgtgaccgcc tcatttggct caaaggtcga ggtgtggctt gccccgaggt
     2941 catcaactgg caggaggaac aggagggtgc atgcttggtg ataacggcaa ttccgggagt
     3001 accggcggct gatctgtctg gagcggattt gctcaaagcg tggccgtcaa tggggcagca
     3061 acttggcgct gttcacagcc tatcggttga tcaatgtccg tttgagcgca ggctgtcgcg
     3121 aatgttcgga cgcgccgttg atgtggtgtc ccgcaatgcc gtcaatcccg acttcttacc
     3181 ggacgaggac aagagtacgc cgcagctcga tcttttggct cgtgtcgaac gagagctacc
     3241 ggtgcggctc gaccaagagc gcaccgatat ggttgtttgc catggtgatc cctgcatgcc
     3301 gaacttcatg gtggacccta aaactcttca atgcacgggt ctgatcgacc ttgggcggct
     3361 cggaacagca gatcgctatg ccgatttggc actcatgatt gctaacgccg aagagaactg
     3421 ggcagcgcca gatgaagcag agcgcgcctt cgctgtccta ttcaatgtat tggggatcga
     3481 agcccccgac cgcgaacgcc ttgccttcta tctgcgattg gaccctctga cttggggttg
     3541 atgttcatgc cgcctgtttt tcctgctcat tggcacgttt cgcaacctgt tctcattgcg
     3601 gacacctttt ccagcctcgt ttggaaagtt tcattgccag acgggactcc tgcaatcgtc
     3661 aagggattga aacctataga agacattgct gatgaactgc gcggggccga ctatctggta
     3721 tggcgcaatg ggaggggagc agtccggttg ctcggtcgtg agaacaatct gatgttgctc
     3781 gaatatgccg gggagcgaat gctctctcac atcgttgccg agcacggcga ctaccaggcg
     3841 accgaaattg cagcggaact aatggcgaag ctgtatgccg catctgagga acccctgcct
     3901 tctgcccttc tcccgatccg ggatcgcttt gcagctttgt ttcagcgggc gcgcgatgat
     3961 caaaacgcag gttgtcaaac tgactacgtc cacgcggcga ttatagccga tcaaatgatg
     4021 agcaatgcct cggaactgcg tgggctacat ggcgatctgc atcatgaaaa catcatgttc
     4081 tccagtcgcg gctggctggt gatagatccc gtcggtctgg tcggtgaagt gggctttggc
     4141 gccgccaata tgttctacga tccggctgac agagacgacc tttgtctcga tcctagacgc
     4201 attgcacaga tggcggacgc attctctcgt gcgctggacg tcgatccgcg tcgcctgctc
     4261 gaccaggcgt acgcttatgg gtgcctttcc gcagcttgga acgcggatgg agaagaggag
     4321 caacgcgatc tagctatcgc ggccgcgatc aagcaggtgc gacagacgtc atactagata
     4381 tcaagcgact tctcctatcc cctgggaaca catcaatctc accggagaat atcgctggcc
     4441 aaagccttag cgtaggattc cgccccttcc cgcaaacgac cccaaacagg aaacgcagct
     4501 gaaacgggaa gctcaacacc cactgacgca tgggttgttc aggcagtact tcatcaacca
     4561 gcaaggcggc actttcggcc atccgccgcg ccccacagct cgggcagaaa ccgcgacgct
     4621 tacagctgaa agcgaccagg tgctcggcgt ggcaagactc gcagcgaacc cgtagaaagc
     4681 catgctccag ccgcccgcat tggagaaatt cttcaaattc ccgttgcaca tagcccggca
     4741 attcctttcc ctgctctgcc ataagcgcag cgaatgccgg gtaatactcg tcaacgatct
     4801 gatagagaag ggtttgctcg ggtcggtggc tctggtaacg accagtatcc cgatcccggc
     4861 tggccgtcct ggccgccaca tgaggcatgt tccgcgtcct tgcaatactg tgtttacata
     4921 cagtctatcg cttagcggaa agttctttta ccctcagccg aaatgcctgc cgttgctaga
     4981 cattgccagc cagtgcccgt cactcccact cttacattgt tcgcagtatc taggtacatg
     5041 ttattgcgtg caccttcatg atgtataatg ttattaatga cagcagaaag atcgacagaa
     5101 ttaatattct tcgtacctgg gacagttatc gggtgtcggc cagtgatgag accaaaggat
     5161 gcagtataag atgaaccact actattatca tggccaccat taccaccacc gttaaaacta
     5221 cctcccgaac ttccagagcc gctatgacca tcattgtagg ggtcatttgg tcccatgtga
     5281 ccaaaaccac cgacagtacc gctatttaac tctgtactca taaaattatc ctctttgact
     5341 tttaaaaaca gcaaaaactg tatttataac aatgtgttta tatacagtat tcgaaatact
     5401 acgcccgtca aaaccacacc gtcaacaggt tttttgtgta tttttcacgc ctcacgggca
     5461 gcctcagacc ttttgtgtta aaacagtaat atgttctgct gttacaatac ggtacacaca
     5521 ggagacactg tcacttttat ggcatggcac acagttcaag agacactgaa attaacagga
     5581 aagtcgcgct cgcaattata tcgtgacatg gctaaaggcc ttgtcagcta tcgcacagga
     5641 aaaaatgatc gccgggagtt cgagaccagt gaactgattc gggcctatgg cgagctgcgc
     5701 acttctgaga caccaaaaag gcacaaggag ggacactcca aatctgtcgt tagccaggcg
     5761 gaaaatgctc agctagacgt cattcagcag aaactggacg ctctgcagca gactgttacc
     5821 ctaatgcttg aagacaagat ggcgcgggaa gcagaaaacc gcctgcgaaa tgaggagagg
     5881 gaacaactac aggccgaaat tagccgtctg gctgacgcgc tggcacagga aaaaaagcgg
     5941 ggattctggt cgcggctgtt tcgctccggt tcagagtaac agtgcaggtg actctgattt
     6001 accataacat ctgttatcag caccgcctga gaggccctca gggcgtttct gacgggaaac
     6061 cggtaaaaca ggcaacaaac cacccgaaaa cccgccagaa acgcgcaggc tctgttttta
     6121 cggcatgcat gagtatgcgc acaagtgcat agcgcggaaa ttcacaccat tc
//
