LOCUS       NZ_CP027129             5193 bp    DNA     linear   CON 16-JUN-2024
DEFINITION  Escherichia coli strain AR_0372 plasmid unnamed5.
ACCESSION   NZ_CP027129
VERSION     NZ_CP027129.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07291515
            Assembly: GCF_002968735.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5193)
  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  JOURNAL   Unpublished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 5193)
  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 (26-FEB-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                   :: 14.00x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002968735.1-RS_2024_06_15
            Annotation Date                   :: 06/15/2024 03:29:00
            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)                     :: 5,370
            CDSs (total)                      :: 5,240
            Genes (coding)                    :: 5,017
            CDSs (with protein)               :: 5,017
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 223
            CDSs (without protein)            :: 223
            Pseudo Genes (ambiguous residues) :: 0 of 223
            Pseudo Genes (frameshifted)       :: 83 of 223
            Pseudo Genes (incomplete)         :: 151 of 223
            Pseudo Genes (internal stop)      :: 45 of 223
            Pseudo Genes (multiple problems)  :: 48 of 223
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP027129.1.
            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..5193
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AR_0372"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
     gene            <1..328
                     /locus_tag="CSC09_RS00005"
                     /pseudo=""
     CDS             <1..328
                     /locus_tag="CSC09_RS00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000503763.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=2
                     /transl_table=11
                     /product="phage tail protein"
                     /name="phage tail protein"
     gene            328..938
                     /locus_tag="CSC09_RS00010"
                     /pseudo=""
     CDS             328..938
                     /locus_tag="CSC09_RS00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001057728.1"
                     /GO_process="GO:0098004 - virus tail fiber assembly
                     [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="tail fiber assembly protein"
                     /name="tail fiber assembly protein"
     gene            complement(944..1420)
                     /locus_tag="CSC09_RS00015"
                     /pseudo=""
     CDS             complement(944..1420)
                     /locus_tag="CSC09_RS00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001703201.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="phage tail protein"
                     /name="phage tail protein"
     gene            complement(1448..1924)
                     /locus_tag="CSC09_RS00020"
                     /old_locus_tag="CSC09_5419"
     CDS             complement(1448..1924)
                     /locus_tag="CSC09_RS00020"
                     /old_locus_tag="CSC09_5419"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000503759.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="phage tail protein"
                     /protein_id="WP_064764636.1"
                     /translation="MGEGSALPVGVPVPWPSATPPTGWLKCNGAAFSSEKYPNLAKAYP
                     TNKLPDLRGEFIRGWDDGRGVDAGRALLSIQTGMLEKHRHIVVANDGYDTKDEWELATI
                     FKKTYTQGWGLDATNTGGSLIPSPTLHSRGSIGNTGGSETRPRNIAFNYIVRAA"
                     /name="phage tail protein"
     gene            1996..2568
                     /locus_tag="CSC09_RS00025"
     CDS             1996..2568
                     /locus_tag="CSC09_RS00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001165547.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0000150 - DNA strand exchange activity [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase family protein"
                     /protein_id="WP_001165547.1"
                     /translation="MQIGYIRVSTNDQNTDLQRNALNCAGCELIFEDKISGTKSARPGL
                     KKLLRTLSEGDTLVVWKLDRLGRSMKHLITLIEELREKGVNFRSLTDSIDTSTPMGRFF
                     FHVMGALAEMERELIVERTLAGLAAAREQGRIGGRRPKLTKEQHEQIARLIENGYSRKQ
                     LAIIYDIGVSTIYRYHPVEKRQTQSEL"
                     /name="recombinase family protein"
     gene            complement(<2700..2828)
                     /locus_tag="CSC09_RS29570"
                     /pseudo=""
     CDS             complement(<2700..2828)
                     /locus_tag="CSC09_RS29570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001755143.1"
                     /note="internal stop; 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="DNA-invertase"
                     /name="DNA-invertase"
     gene            3028..3267
                     /locus_tag="CSC09_RS00035"
                     /old_locus_tag="CSC09_5421"
     CDS             3028..3267
                     /locus_tag="CSC09_RS00035"
                     /old_locus_tag="CSC09_5421"
                     /inference="COORDINATES: protein motif:HMM:NF027409.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="phage holin family protein"
                     /protein_id="WP_072258887.1"
                     /translation="MLSLLGGVYSYLSGLCENRYESSCKKLLAECISAVLAGFIGMYLA
                     EYKDMNESLQSCMVLIFSANSRLIIEGSKSRLNR"
                     /name="phage holin family protein"
     gene            3342..3671
                     /locus_tag="CSC09_RS00040"
     CDS             3342..3671
                     /locus_tag="CSC09_RS00040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000887652.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="phage holin family protein"
                     /protein_id="WP_000887652.1"
                     /translation="MLDTQELAPVAIALLLSVIGGIGTFLMDVRDGRQSGNLLGLVTEI
                     FVAVTAGAVAYLLGQHEGWELSITYLMVTIASNNGHEVISGMKRVNIDSILNVLTSLVK
                     KGGGK"
                     /name="phage holin family protein"
     gene            3668..4111
                     /locus_tag="CSC09_RS00045"
                     /old_locus_tag="CSC09_5423"
     CDS             3668..4111
                     /locus_tag="CSC09_RS00045"
                     /old_locus_tag="CSC09_5423"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000580770.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000580776.1"
                     /translation="MIGWGVCVLALALADRYLLKRKDITHLELGDVEIKPGFIRVPFKY
                     RSKFPFLRGATVRYWIRDVQKPTTVIEGEQRCLTSAEQGENSEWLYIPTEYMGKGERLW
                     HFNVMVTHGDSFINPLYRIFPVTQQIRRSYVINLAQDVSDDEK"
                     /name="hypothetical protein"
     gene            4098..4700
                     /locus_tag="CSC09_RS00050"
                     /old_locus_tag="CSC09_5424"
     CDS             4098..4700
                     /locus_tag="CSC09_RS00050"
                     /old_locus_tag="CSC09_5424"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002433476.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001345482.1"
                     /translation="MTKNKYATVDFDQVNEKGLKSLIAAINKTGVTVIEVDSSNRATTK
                     DGVKVKTAKLVLNDGQILAIQVNDTGDISSVRLNGKAIPNAQSPDIKTLGTVMGQAARK
                     NSAKFQKSLIAKAKRVANPVDKKPAVKSNFQRLQEAKQRNAQVVAAYKSAQNSVSFNQQ
                     QITDLRAKLDKETGRLNNEKARNGELKRRLKQLKAGN"
                     /name="hypothetical protein"
     gene            4702..>5193
                     /locus_tag="CSC09_RS00055"
                     /old_locus_tag="CSC09_5425"
                     /pseudo=""
     CDS             4702..>5193
                     /locus_tag="CSC09_RS00055"
                     /old_locus_tag="CSC09_5425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697773.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="internal head protein"
                     /name="internal head protein"
ORIGIN
        1 cccaacgtta aaattacctg atttacgcgg tgagtttatc cgtggttggg atgatgggcg
       61 aggtgtggat gcgggaaggg tcatcttaag catacagggg tggttaacag gaagtcatta
      121 tcataatatt cggtcatggg acgcgtggga taacacggta ttggtgccaa atgacagagg
      181 gggggatagc ctgttgtcga cagataacgc cgtccaagaa ggagcgatta atggtaaatt
      241 taccagtcaa tacagaacgg agttatctgg ggggaatgaa acccgcccac gtaacattgc
      301 cttcaattat attgtgagag cagcataatg gataatgcga tattaaatag cgaacttata
      361 gccatacagg caggaaacat tatcgtttat aactatgatg gtggtaatcg ggaatatatt
      421 tctgcatcaa ctgaatatct tgctgttggc gttggtattc cggcacattc ttgtttggat
      481 gctccaggct cacataaagc aggttatgcg attctccgtt cagaggattt aagttcatgg
      541 gagtatgtgc cagatcatcg tggcgaaact gtctatagca ttgacacagg gaatcccgaa
      601 gaaatcacgg tgttgggtga ctatccggaa aatacaacca ctatcgcccg ctaacaccat
      661 acgacaaatg ggatggagag aaatgggtgg ttgatactga ggctcaacat agtggcagct
      721 gtagaggcag cagaaacaaa acgtcagtca ttgattgata ctgcgatgga ttccattagt
      781 ctgattcagt tgaaattacg ggctggacgg aagttgacgc aggcagaaac caccagctta
      841 actccgtgct agattatata gacgagctga acgcgatgga tttaaccacg gcaccagatc
      901 tcaactggcc tgaaaaacaa ctttctacag ccagttgata taattaatcc gccctcacaa
      961 tataattaaa tgcaatatta cgagggcggg tttctaagcc agcagtacct aaattagcta
     1021 cggactgttt atatgtttta aagttccata attaggggct ggcaatcctg catcgcttgt
     1081 gttcccccat ctgataactc ccgtattacc actagtagcc catgcctcgt caaagtagaa
     1141 attaattgag ctgtcagttg ctacggttga ttttgacggt aatccgtgag catgatctcc
     1201 gttgcatatc cttgctcgct taaatagagc gacctggatc aatcccgcgc ccgtcatccc
     1261 agccacgaat gaactcacca cgtaaatcag gcaatttatt gtcgggttaa gcctttgcca
     1321 gatttgggta cttttcagaa gaaaatgctg caccattgca tttcagccac cccgttggag
     1381 gtgtggctga gggccacgga acaggcacac caacaggcag tgcagagcct tccccaaacc
     1441 aacgttttta tgccgccctt acgatgtaat taaatgcgat atttcgtgga cgggtttcac
     1501 tcccgccagt attaccgata ctccctcgtg aatgaagtgt cggtgatggg atcagactcc
     1561 ctcctgtatt tgtggcatca agtccccatc cttgtgtgta tgtttttttg aaaattgtcg
     1621 ccagctccca ttcatctttt gtgtcgtaac catcattggc tacaacaata tgtcgatgct
     1681 tttccagcat tcctgtctga atgctcaata aagcacgtcc cgcatccacc ccgcgcccat
     1741 catcccagcc gcgaataaat tctccccgta aatccggtaa tttattggtg ggataagcct
     1801 ttgccagatt tgggtacttt tcagaagaaa atgctgcacc attgcatttc agccaccccg
     1861 ttggaggtgt ggctgagggc cacggaacag gtacgccaac aggcaatgca gagccttccc
     1921 ccaaaccaac gttttagtct taatccctac ctataccaac gatgtatttt taactaaaca
     1981 aagaggttgt ttttcatgca aattggctac attcgtgtgt caacaaatga ccaaaacaca
     2041 gatttacaaa gaaatgcact gaactgcgca ggatgtgaac tgatttttga agataaaata
     2101 agcggaacaa agtcagccag accaggcttg aaaaagctgc tcagaacgtt atcagaagga
     2161 gatacgctgg ttgtctggaa gctggatagg cttggcagaa gtatgaaaca ccttatcacg
     2221 cttatagagg agttgcggga aaaaggtgtt aatttccgta gtctgacaga cagtattgac
     2281 acatcaacac ccatggggcg tttctttttt cacgtcatgg gggctttagc agaaatggaa
     2341 cgtgaattaa ttgttgagag aacactggcc ggactggcag ctgcacgcga acagggacgc
     2401 attggcggac gtcgcccgaa gttgacaaaa gaacaacatg agcaaatagc gaggttgatc
     2461 gaaaatggct acagcaggaa acagttggca attatttacg atatcggtgt atcgacgatt
     2521 tatcgttatc atcctgtaga gaagcgccaa actcaatctg agctgtaatt ctaatgccgc
     2581 gtcggtgtaa tttatcttga tagaataggt acatttatcg cgcggcacat caattcgatg
     2641 tatctagcgc ctgctgaccg ctaatgaaaa ctgtcctcga aatgttgtcc ctagcccgag
     2701 actagggtat cacctctgga aagcatacgc agaacctttt ttaacccagg gtgcccagcc
     2761 tttttgctgc tcgccttatt cgcaaaaatt agctcacatc ctgcgctttc aagtgctttt
     2821 cactgcatag ctgtgttttg ttcatttgtc tatatgcgta catagcctat tagcatattt
     2881 tctgcccact atcgttattt attgcaagct acaggtttta attaacaaaa ccagtgtgtg
     2941 tggaaatcac aaagtgcata ccgttctcag atgttgttca acttactgtt gtataggtaa
     3001 aaaatgacat tttatgtaca tatcgtgatg ttatcccttc ttggtggggt gtattcgtat
     3061 ttgagtgggc tatgtgaaaa ccgttacgag tcttcatgca agaaattgct ggccgaatgt
     3121 atttccgccg tacttgctgg ctttattggc atgtatctcg cggaatataa ggatatgaat
     3181 gaaagccttc agagctgcat ggttcttatt ttcagcgcca atagcaggct tattattgaa
     3241 ggttccaaaa gtcggttgaa taggtaagtc tcttatgcaa cataaccggt tgagaagtta
     3301 ctttgcatac cattacctcc tgacaacgta ggagggaact tgtgcttgac acacaggaat
     3361 tagctccagt tgctattgcg ctcctgcttt cagtaattgg tgggataggc acgttcctga
     3421 tggatgtccg agacggtcgc cagtctggca atttgttggg attggttacg gagatctttg
     3481 ttgcagtgac agctggcgcg gtggcgtacc tattggggca acacgagggc tgggagttat
     3541 ccattacgta cttaatggta acgatagcca gcaataacgg tcatgaggtg atttcaggga
     3601 tgaaacgagt gaatatcgat agcattctga atgttcttac aagtttggtg aaaaagggag
     3661 gcgggaaatg attggctggg gtgtatgcgt tcttgcgtta gccttagccg atcgctattt
     3721 gctaaaacgc aaggacatca cgcatttaga acttggtgat gtggaaatta aaccgggttt
     3781 catccgggtg ccgttcaaat accggtctaa attcccgttt ttgcgcggcg caacggtcag
     3841 atattggatc cgcgatgttc agaagccgac gacagtgatt gaaggcgaac aacgttgttt
     3901 gacgtcggct gaacagggcg aaaacagtga atggttgtac atacccactg aatatatggg
     3961 taaaggagag cgactgtggc atttcaacgt catggttacg catggcgact cgttcattaa
     4021 cccgttgtat cggattttcc ctgttactca gcaaatccgc agaagttacg taataaatct
     4081 cgcacaggat gtgtcagatg acgaaaaata agtatgcaac ggtcgatttt gaccaggtta
     4141 atgaaaaggg gctgaaatcc cttatcgcgg cgatcaataa aaccggtgtt acggtaattg
     4201 aggttgactc cagcaaccgc gcaacaacga aagatggcgt taaagttaaa accgcaaagc
     4261 tggttcttaa cgacggacaa attcttgcca tacaggtaaa cgatactggc gatatatcgt
     4321 ctgtgaggct gaatggaaaa gctattccta acgctcaatc gccggatatc aagacgcttg
     4381 gtaccgtcat ggggcaagcg gcccgcaaaa actccgcaaa attccagaaa tcactgatcg
     4441 ccaaagcgaa acgtgttgcc aatccggtag acaagaaacc ggcagtaaaa tccaactttc
     4501 agcgcctgca agaggcaaaa cagcggaatg ctcaggtggt tgccgcttat aaatcagcgc
     4561 agaactcggt gtctttcaat caacagcaga tcactgattt gcgggcgaag ctggataagg
     4621 agacaggccg actcaataac gaaaaggccc gaaatggcga actcaaacgc cgtcttaagc
     4681 aactgaaagc aggaaattaa catggaacag ttcaatatca ataaaggggt gacgatcaag
     4741 cctgggcttg acgtgcttcc cccgccagtg actgatgatg aatatcgcgc attaatggcc
     4801 ggtgaggacc gctatctgat gacggaatcc aacaccctgg aggaaatcga ggctacgttc
     4861 ttctatgaca cgccgatcca ctggtgtgct acggatttac tggaggcgat tagttctact
     4921 cgtttgcagt tacaccggac catgcaggca tttgtccggg cattgaacca gaagctgaat
     4981 ggtaccggaa tctctgcggg gagtgataaa acgggggatg tggcccagag cggcgcgcgc
     5041 gcgatcggcg gtgctgaaat tggccgggca cggaacgtta acgggctgcc ggtcctgcca
     5101 gccattattc cgctcagtga tggtcagact atcagcattc tgtttcatag cccgacagcg
     5161 gaaaaccgga tcaccaatag cgatacgctg gtt
//
