LOCUS       CP134929                5169 bp    DNA     circular BCT 27-SEP-2023
DEFINITION  Escherichia coli strain 284 plasmid pMB6980_6, complete sequence.
ACCESSION   CP134929
VERSION     CP134929.1
DBLINK      BioProject: PRJNA924946
            BioSample: SAMN32977818
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5169)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Temporal Dynamics of Genetically Heterogeneous Extended-Spectrum
            Cephalosporin Resistant Escherichia coli Bloodstream Infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5169)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JUN-2023) Infectious Diseases and Infection Control,
            University of Texas MD Anderson Cancer Center, South Campus Research
            Building 4, Houston, TEXAS 77054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.9.2
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 67x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/21/2023 12:12:26
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,805
            CDSs (total)                      :: 4,684
            Genes (coding)                    :: 4,453
            CDSs (with protein)               :: 4,453
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 231
            CDSs (without protein)            :: 231
            Pseudo Genes (ambiguous residues) :: 0 of 231
            Pseudo Genes (frameshifted)       :: 68 of 231
            Pseudo Genes (incomplete)         :: 168 of 231
            Pseudo Genes (internal stop)      :: 35 of 231
            Pseudo Genes (multiple problems)  :: 40 of 231
            Pseudo Genes (short protein)      :: 4 of 231
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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..5169
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="284"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB6980_6"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2018-11-04"
                     /collected_by="MDACC"
                     /note="genotype: ST10"
     gene            1..927
                     /locus_tag="RNP63_23980"
     CDS             1..927
                     /locus_tag="RNP63_23980"
                     /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="WNL98325.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDRVGAAIDWSDRNSPAPNVTVKNPVNGHAHLLYALNIAVRTAPDSSVKA
                     LKYAAAIERSLCEKLDADANYSGLICKNPFHLEWQVKEWREEPYSLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGRSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKIGGAKSKRGAVATS
                     ARTLKPWVTLGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1122..1520)
                     /locus_tag="RNP63_23985"
     CDS             complement(1122..1520)
                     /locus_tag="RNP63_23985"
                     /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="WNL98326.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEDGLTEQERK
                     LLHVLATAEKNDLQAQENERKQTIQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELYYKKDKILQVLKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1697..2623
                     /locus_tag="RNP63_23990"
     CDS             1697..2623
                     /locus_tag="RNP63_23990"
                     /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="WNL98327.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYYRHLEQARMVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDGVSRENRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2626..3159
                     /locus_tag="RNP63_23995"
     CDS             2626..3159
                     /locus_tag="RNP63_23995"
                     /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="WNL98323.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAIEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3225..3434)
                     /locus_tag="RNP63_24000"
     CDS             complement(3225..3434)
                     /locus_tag="RNP63_24000"
                     /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="WNL98324.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     Typing          2..927
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.565"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1698..2620
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.078"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcgccg cgcttcaata cttcgacgaa aatttacccc accgtcccta tcacacggat
       61 gatctcgctt ttggtcttcg catctccggc aaagggcgtg cgcttcttgc tcggtacatc
      121 cagcagaacc agcctcatgc gcagttctgg ctggtttttg acgttgaccg cgtgggggca
      181 gcgatcgact ggagcgaccg gaactcaccc gcaccgaacg tcaccgttaa aaatcctgtg
      241 aacgggcacg cccacctgct ttacgcactc aatatcgccg tgagaaccgc accggacagt
      301 tcggttaagg cactgaaata cgctgccgca attgaacgct cgttgtgtga gaaacttgac
      361 gcagacgcga actacagcgg gctgatttgc aaaaatccgt tccacctgga atggcaggtg
      421 aaggagtggc gcgaggaacc ctactccctc gatgaactgg ctgattatct cgatttgagc
      481 gcctcagcgc gccgtagcat cgataaacat tacggaatgg ggagaaactg ccatctgttc
      541 gaaatgacgc gcaaatgggc ttacagggcg attcggcagg gctggccagc attctcacag
      601 tggcttgatg ccgtgattca gcgtgttgaa atgtacaacg catcgcttcc cgttccgctt
      661 tcaccgcctg aatgtcgggc tattggcagg agtattgcga aatacacgca caggaacttc
      721 acgccggaaa ctttcgcaca gtatgtggct gatacgcaca cgccagaaat tcaggctgca
      781 cgtggtcgca agggcgggaa aattggaggt gctaagtcta agcgtggtgc tgttgccaca
      841 tctgcgcgaa cgttgaaacc gtgggtgact cttggaatta gccgcgcctg gtattaccaa
      901 ctgaaaaaac gaggtcttgt agagtagacc aaataaaacc tatatcagat aacagcgcct
      961 tttttgcgtc cttttgagtc gtaggttttt cgtcgtttat cccagcaatg gcgtttcttt
     1021 ccgcatgatt gcgctggtag tgctcgccgc agtctcatga ccgagcgtag cgagcgaatg
     1081 agcgaggaag caccagggaa ccagaatgtg aacgggaata cttacgcgtc tgggtttggg
     1141 gatgtctcca gatcgtactt aagttcctta agtacttgta atatcttgtc ttttttatag
     1201 tatagctcgc ctgtttttgt gtctaccagt cctgcttcga tcagtagccc agccgcgaga
     1261 aagagtcggt gattgcgttc ccgtcgttgt ttttttccct cgattcgttt ctggatcgtc
     1321 tgttttcgct cgttctcctg tgcctgtaag tcgttttttt ccgctgttgc cagcacgtgg
     1381 agaagtttgc gttcctgttc tgtgagtccg tcttcgttgt cgagcaggtc aataatctgt
     1441 ctctgtcgcg cggtctgttc tccgagcttc ctgatgaatc cgatccgttt cttcagccat
     1501 tcgatgttgc tgatgcgcat gtttgtggta ctccctggtg tttttttacg gcggtttgtg
     1561 gtcgtgcagt atatcgcttg cggtcggcgg gtgcaggggg tatcttccgt actaattcga
     1621 ataattagaa ggaagcgcac ttatatgttt ctctccttcg tcgagaaaca gtgcgctcct
     1681 gcagagggct gaaaccgtgg caacctatca cctcagcgtt aaatttggtg gcaaggggca
     1741 ggctgcaaac cacgccgatt acatcgagcg caaagagaaa taccgcgacc gtcaggattt
     1801 ggaatattcc gcacacggaa acatgccgga atgggccagg gataatcctt cccatttctg
     1861 gcaggcggct gaccagtttg aacgtgcgaa cggttcgacc tatagggaac ttgaaattgc
     1921 attaccccgt gaactgacag cggaacagcg ccttgaactg gtgcaggatt ttgtacgtca
     1981 ggaagccggc gaacggcacg cctggagttt tgccattcac aatccgaaag cgagcattga
     2041 cggcggcgaa cagcctcatg cgcatatcat gatgagtcag cgtgtgaatg atggaattga
     2101 acgtacaccg gaacagtatt tccggcgcta taacgccagg tatcccgagc ggggaggtgc
     2161 gaaaaaggat tccggaagcc tgactcccac tcagcaaaaa gagcagttgc gggaattgcg
     2221 aaaacgctgg gaggtgaagc acaacgaaca tatgagaaag catggctttg aaaggggctt
     2281 cattgactgc cggacgctga aagaacaggg cattgaacga cgtcccgaag tgcatctggg
     2341 ttttgaagct gccggacgac ttgatgatgc ccagcgtcat gacatcatgc aaaaacggtc
     2401 tgaaccggac tattaccgcc atcttgaaca ggcgcgaatg gtcgggcatg acatcaggga
     2461 atggctggat acaccggtta agcaacatga actggtcaga aggctgcaac atgatgttgc
     2521 gcgggagcat ggctttgaca tgagagacgg agtgagcaga gagaaccgaa ctgaacctga
     2581 acgggttaaa tcaccgtcac gtggattttc tatgggattc tgaacatggc cagcacagaa
     2641 gaaaaattac tcacgctcct gttatcggtg gagcatctgc aacataccgc aatagagcaa
     2701 cagaaagctg ttgctgattc tctggctgtg gcaagggaaa ctcttcgcgg atatcgggat
     2761 atttctgacg gtgtggcaaa acaggtcagg gatgaagtca gaaacgaggt gcagaagctg
     2821 gacgtggcag gactgatagg tgagcgcatc agccaggatt ttcagcggct ggaagagtca
     2881 gtcgcaaaca tgaaggcaaa cgcggatgcc ctgaacaggg atattgcgac aattcacagc
     2941 aatatcgtgc aggaatacaa cacccttaaa gggtatagct ggaaatggct gggtggggtg
     3001 tcagtggctt ttctggttat gttctgtgtg ctcggatggg gaatgaaaac aatactcgac
     3061 aggaactaca acgccacagc ggcggtgtat cagaaagttg tgacactgga agataaactg
     3121 gtggagaaac ctgtcacggg gaagagccgg aaaaactgac gcgcttcgct tgtccaacgc
     3181 ctcacgaccc gcgaaaggat ttcgcgaacc gttcaccgtt tttttcaata tgattctgtc
     3241 tgctttggtc gataaagcag acgatagtat tccagccttc gtatatataa cggtacgtgc
     3301 tcatcagtaa gagctggcgg tattgtgtta tcagggggaa gttttttcag atactcacga
     3361 aatgcctggc ttgatgccat aaaatctaca gtagcatcga taatatgtgg ggtgttttca
     3421 cctaattttg ccatgatgat aatccttata ttatcacggt ttgtgaatga tagggtgtca
     3481 ctattattta tgcgttagtg aaccagaaaa aatcccccgt tggcataggg ggatatgtaa
     3541 ggagaaataa cttcgcaggt gttcttgttt gtataacgtg aaaagactgc acgcaactta
     3601 ataagtctgc cgtacttact ttcagttttc aacataaggt ttataacaat gtatggaatg
     3661 gaagtgagct ttaaggtttc agctctaaaa aataaaatat ttattagttg gctggttgtt
     3721 gttcttgttc tgtatgtata taaacactat cgacatatta tgaccgggaa cattccttac
     3781 cccctctgcg ctcgcagagg ttttttttgt cattaattaa taatgaactg aaatgcagtt
     3841 ccgatacctc catttgcaca ttatccctga catatggtac cggaaccgca ttaattttat
     3901 gttataagag tttattttta atgtccagat ggtttaatag tatttatatg taattagctg
     3961 tatggatagt actggtttta ttgtataact tgtcgttttt tttattgttt ttgtgtggtg
     4021 tgctaatctt taagttataa aaaaacccct tggaatacag gggcaaaagt aaggaaaaca
     4081 aatggatgct cagtttgtgt gacactttaa actaatggaa ctatagagtg gaggttgtta
     4141 cagtcgcttt tataaaacag caaccagttt ttttcaatag tctgatgatg gttgtgacag
     4201 ttttgtgata ttgttcaaaa tgtttcttgt tgaatgtttg ttttttggtc tattggtgtc
     4261 tggttttatt ttttctgcta ttacatatca agaaatgtga ttggtgtagc aagagtggaa
     4321 tgcgatgtgg ataaactaat tggttgtcga atctaattta cttagaaaac tacacttgtt
     4381 tttgtgtatg aatttagtga atttgtctgt ctatgtgttt tcgtgcattt ataaatcctt
     4441 cgtcaggatc ttaaatttag tgttgaatat gtagggcctg tacggtaatt attatttagc
     4501 gtagctactt catcgttgtt cgaacacaac caacaacctg taattgttgt ttctcttggt
     4561 tccccacttt tgtggggttt tttatctctt ccgtgcatcg taaagcgcgg actccttctg
     4621 gaaaggttgt tttagggcat cactgaggca ttttttgcgt ttgtgaatat tgagcatccg
     4681 ataactaaaa tatttcccat agactctgat tcttgccacc gaccccaggt cggttttttt
     4741 ttgtcctggc gagatgtgaa gtttggaaac aggaaacccc gtcagagcgc cacgcaccag
     4801 gggagaaaac ttgtcgtttt gagccgttcg gtgttcagaa cgcacgaaac cgatcgcaca
     4861 tcgctttcgt gcatagttat gcaacgccct gaaaacgatt ctgacgcgtt tttctggttt
     4921 ggcctggtgt tttcttgtct ttttgcgttt tttgcgccag aaagcgactg agggcgtttt
     4981 aaggggggcg tacaacggga gttatggtaa atggatcggg ttttcgggaa ggttcgacag
     5041 gatttgccgt tgggtgtagt gtaagcgact gaaaaacaaa cgcccctgaa atcatgtcca
     5101 gatccggcaa gattcaacat gaaatacaga gggcgtgtag gtcgcataac ccggagagaa
     5161 tcgtaacac
//
