LOCUS       CP134909                1902 bp    DNA     circular BCT 27-SEP-2023
DEFINITION  Escherichia coli strain 3320 plasmid pMB3134_4, complete sequence.
ACCESSION   CP134909
VERSION     CP134909.1
DBLINK      BioProject: PRJNA924946
            BioSample: SAMN32977729
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1902)
  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  JOURNAL   Unpublished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 1902)
  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                   :: 407x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/21/2023 12:37:51
            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)                     :: 4,879
            CDSs (total)                      :: 4,767
            Genes (coding)                    :: 4,605
            CDSs (with protein)               :: 4,605
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 62 of 162
            Pseudo Genes (incomplete)         :: 111 of 162
            Pseudo Genes (internal stop)      :: 32 of 162
            Pseudo Genes (multiple problems)  :: 38 of 162
            Pseudo Genes (short protein)      :: 3 of 162
            ##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..1902
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="3320"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB3134_4"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2017-01-08"
                     /collected_by="MDACC"
                     /note="genotype: ST91"
     gene            join(1782..1902,1..419)
                     /locus_tag="RNQ06_24385"
     CDS             join(1782..1902,1..419)
                     /locus_tag="RNQ06_24385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000893324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="firmicute plasmid replication protein RepL"
                     /protein_id="WNL80059.1"
                     /translation="MLEQQFEDFEQQKRRDHQVQDQSKNAKQKRDRLNPPDWSQVTKAG
                     WNMLDAISEKVPRAFRLYSFFAQNIDKSCGAVVCDQKFLADYFGVSLRTIQYWIGDLES
                     IGAIVKIPVGIYYAYALDPYQVWRGYNNTKKYAAFNAKTLTQKDGVIDRKLRLMLSRRE
                     EFESSLKYSNHDSEQG"
                     /name="firmicute plasmid replication protein RepL"
     gene            426..713
                     /locus_tag="RNQ06_24390"
     CDS             426..713
                     /locus_tag="RNQ06_24390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001220925.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WNL80060.1"
                     /translation="MRIKYESRWRLEELKLEICSSIDELINKYGIEYATGINLYMNCED
                     KEFNLVDVINEDGNKIMFVVSNDEKIQKPKKIAKKKTPAPVIELDKYRKK"
                     /name="hypothetical protein"
     gene            complement(1163..1288)
                     /locus_tag="RNQ06_24395"
     CDS             complement(1163..1288)
                     /locus_tag="RNQ06_24395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001380222.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WNL80058.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGVTSRMLSVIPLLFFQG"
                     /name="replication protein"
     Typing          1325..1406
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.59"
                     /coverage="100.0"
                     /evalue="2.9e-32"
     Typing          complement(952..1210)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.308"
                     /coverage="99.0"
                     /evalue="1.08e-121"
ORIGIN
        1 ttactaaggc tggttggaat atgttggacg ctatatcaga aaaagttcct agagcatttc
       61 ggttatattc tttttttgcc cagaatatag ataaatcatg tggggctgtt gtatgtgatc
      121 aaaaattctt agctgattat ttcggtgtta gtttaagaac gatccaatat tggattggag
      181 atttagaaag tattggcgca atagttaaaa taccagtagg catatattat gcctatgcat
      241 tagatcctta tcaggtatgg cgtggatata acaatactaa aaaatatgca gcatttaacg
      301 caaaaacatt aactcaaaaa gatggggtta tagatcgtaa attgcggctt atgctttcta
      361 ggcgtgaaga gtttgaaagt tccttaaagt actctaatca tgactcagag caggggtgat
      421 gcactatgag aattaaatat gaatcacgtt ggagattaga agaactaaaa ttagaaatat
      481 gcagttcaat agatgagtta attaataaat atggtattga atatgcaaca ggaataaatc
      541 tttatatgaa ttgtgaagat aaagaattta atcttgttga tgttatcaat gaagatggaa
      601 ataaaataat gtttgtcgtt agcaacgatg aaaaaataca aaagccaaaa aaaatagcaa
      661 agaaaaaaac tccagcacct gtaattgagc tagataaata tcgaaaaaaa tgaccattga
      721 gccagcggca ggcggacaat caggggctac gtgttaacgt tctgaccttg attgtctatc
      781 ctgcattgct cttttgccgc ctcgaatccc ttgcgtgttt ttgttccacg ctctccagaa
      841 cgaccgagcc gccacggttc cgatagcgcc ttgagcgcaa ccggaaaccg tctggggaga
      901 accccagacc cccatcgctg taataccgac ggtctacgac cacctaccag ccgaatagct
      961 gcctatgccg tgcaaatagg ctttgcaggg ggctgacgct gttcctggcg acctgaaagc
     1021 ccctggttag gggtatcggc gcgcctgacc tcctgagagc ctctgtaagc gtttttcgcg
     1081 ccttccatgc cctgacgggc atttaaaacc cgtttcgtgc gtctgagagc ttctgagcgc
     1141 gtttgaaggg ctatctgacg actcatccct gaaagaacaa caacgggatc accgacaaca
     1201 tgcgagaggt gacaccgctc gccgcaagtc gatgaccgag cgtagcgagc gaatcgacga
     1261 ggaagcggaa gagaaccgga agccacattg agcacttacg cactgatgcg gggtgtcggg
     1321 gtgaagccct gaccaggtgg tgaatgtctg agtgcgcgtg cgcggtccga cattcccaca
     1381 tcctgtcccg atttctgagg ctttttagcg gtgaacggac ggcaaaacca tgatggagtt
     1441 gttgaacgtt gagagcatga aatctggcaa aaatcacggc tggtaaggct tgcagaggag
     1501 taagccagta tacactccgc tatcgctacg tgactgggtc agggctgcgc cccgacaccc
     1561 caaaagcagt taggtagtgt taaatcatga gcagtaaaaa aacgctttga tagatcttta
     1621 gagcaaaaat tgacatttct ttaaaaatca ttgacttaag acaccttcat acgaaacgtt
     1681 atttgcatgt gtatacgcaa acatgtttgc atgtgttgtt tcgtactgta cgatataaat
     1741 ttcgtaaggt gcgaaatatc attgcaggta aggatgcaag tatgttggaa cagcaatttg
     1801 aagactttga acagcaaaaa cggcgagatc atcaggtaca agatcaatcc aagaacgcta
     1861 agcaaaaacg agatcggttg aatcctccag actggtcgca gg
//
