LOCUS       CP136918                4076 bp    DNA     circular BCT 29-OCT-2023
DEFINITION  Escherichia coli strain 2023JQ-00025 plasmid unnamed5, complete
            sequence.
ACCESSION   CP136918
VERSION     CP136918.1
DBLINK      BioProject: PRJNA288601
            BioSample: SAMN34403761
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4076)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Pathogen: clinical or host-associated sample
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4076)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-OCT-2023) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 20.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/18/2023 17:22:32
            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)                     :: 5,303
            CDSs (total)                      :: 5,184
            Genes (coding)                    :: 4,983
            CDSs (with protein)               :: 4,983
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 201
            CDSs (without protein)            :: 201
            Pseudo Genes (ambiguous residues) :: 0 of 201
            Pseudo Genes (frameshifted)       :: 58 of 201
            Pseudo Genes (incomplete)         :: 149 of 201
            Pseudo Genes (internal stop)      :: 34 of 201
            Pseudo Genes (multiple problems)  :: 38 of 201
            Pseudo Genes (short protein)      :: 4 of 201
            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..4076
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2023JQ-00025"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA"
                     /collection_date="2023"
     gene            join(3855..4076,1..1926)
                     /gene="mobQ"
                     /locus_tag="R2S07_26505"
     CDS             join(3855..4076,1..1926)
                     /gene="mobQ"
                     /locus_tag="R2S07_26505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WOO56771.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANADYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2184..2891)
                     /locus_tag="R2S07_26510"
     CDS             complement(2184..2891)
                     /locus_tag="R2S07_26510"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003887 - DNA-directed DNA polymerase activity [Evidence
                     IEA]; GO_process: GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WOO56772.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3422..3676)
                     /gene="mobC"
                     /locus_tag="R2S07_26515"
     CDS             complement(3422..3676)
                     /gene="mobC"
                     /locus_tag="R2S07_26515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WOO56770.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          2..137
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.81"
                     /coverage="100.0"
                     /evalue="7.75e-60"
     Typing          complement(3681..3854)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.286"
                     /coverage="98.0"
                     /evalue="2.6299999999999998e-81"
     Typing          3855..4076
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.861"
                     /coverage="100.0"
                     /evalue="5.66e-101"
     Typing          complement(2185..2891)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..1923
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.519"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaggccgaac gccggaagaa ctcacaactt gcgcgggaaa ttgaactcgc tatcccccgt
       61 gaactgccgc aggatgccgc acgggaaacc gttctcgcct ttgtcagaga aaactttgtc
      121 agtcagggca tgattgctga tgtggcgttc catcacatgg ataaaacaaa tccccatgcg
      181 cacatcatgc tgaccacgag ggctgtcgga cctgctgggt tcggcggaaa ggtcagggac
      241 tggaacgacc ggacacatgc cgagacgtgg cgtgcatcat gggctgacca tgcaaacaga
      301 gcactggcga acgccgatta tcaggaagag atagaccatc gttcatacga gcgacagggg
      361 cttgagaaaa cgcctggtat tcacctcgga aagtctgcct gtgcgatgga aacacgcggt
      421 atcgaaacag aacgcggcga acagaatcgt ctgattaaca ggcttaacct ggaaatacag
      481 atttcccgca ctgaactcag gaacagcggg ctgacagagc ctgcccgccg tgtggctgac
      541 cttctgaata tcgggcttcc tgacaacgca acttcgtaca cactacgtga cattatcgaa
      601 gcgttgccga aggacagtaa ctcggcatgg aaactcacca gtaatgccat gtcgatgatg
      661 gcagatatgc aggcgacgcg cagacgctgg gaagagctga acaccgaacg aaaggaagcg
      721 atgagccatg ctgccagcct gaaaaaatca tcgccgtttt cgtccggttt ttcccgtatt
      781 ccccttatgc aatgggcggc accggaatac cgtagtgagc agggaaaaat ccagtctctg
      841 agccagcaaa tggaaaaatt acgacagcat taccggaagg tggagaaaca ggacattccc
      901 gcgagtcaga tggcatttga aaaacagtgg cagcagtggg gggaatccgg ccttgcagct
      961 ctcagagccc agttgcttaa acgtgaagag gaattgcgcc ggaaggaaca ggaagatact
     1021 gaacgtagtc gcgcggagca gctcaggaaa aatgacaatg ccgttatgga ttcaggggtg
     1081 ctgagagcag tcgttacggg gtatggcgag gctcccatgc ctggtaacgg ggaaatgacc
     1141 tgttaccttc tgcttcacaa ccggaacgga gaatatacgc tctgggggaa cgagctggag
     1201 aaataccgca ccagaatctt tgagagtgtt gatttaatgc gtgacaggag tggttatatc
     1261 tgtgaccgaa gcgaaatcgg ccaacgtccg ccactgcaac gtgtttattc ctctgcaacc
     1321 tttgagcaac tgctgacgca ggtttgccag acatggccgc aacatacccg caatctccgc
     1381 cagccgaaga catggccgga gtctttctgt cttggagaag accgccagcc agccatgcca
     1441 tcactggcag caaggaaggt ggattttacg cagggacgtc tgccaccgac gctgatgccg
     1501 gtaatgagtt ctgtcgaccg ggaaacccgc cagcttcagc ttttgctggt catgggcgtg
     1561 gatgactctc tgggcggtgt tgtccggctt aatggtacgc tgtatcccgc gtttgccgtt
     1621 ccctcagccg ataacagcca gctggtcatc agtgcactga ccgataaggg gttacggtat
     1681 gcagggtatg gtgttgccgt aaatcacgat gcagacagcc acatatcacc tgcgccggaa
     1741 cttatggagt ttcatctgaa aacccgtgag gcaccgcttt ttgctgccgt caacacacca
     1801 gaaaaacagc cggatcatct gttccgctcg ctgggtttca atcgtacctg ggacgaatgg
     1861 cggcgcgagg aagatgcaag aacacacacc accgagagga gacatgatcg cggttggtca
     1921 cagtgaatgt gaacaatatt ttgttttgtt taacatcgtg ttatgttcgt cgatgttctt
     1981 cgatgttcat cgacagggat gaatgcaaga agcacactca cataatgcaa gcatagtttt
     2041 gtttttccgc ccccaaaaat tgggggttct ttttttgctg catcagagcg tttttgacgc
     2101 aacttttcac ttcaatggta ccttcgtatt cctgacacaa gaaaaacgcg acagtgagcg
     2161 ttttaggtgc cttaaaatcg attctagatc gtcatcttga tctgtttgtc ttccttgaag
     2221 cgaaaatgca gggctacaac cgtgcgcccc tttttgatcg tctcaaccgt tacagccagg
     2281 tcgctttttt tgttcagttc gtcaacacag ggttttatta gatccctgtt taacgttttg
     2341 aaatctttat atttaccatc aagcatcagt gatgatttaa aatcatcgag ggcgataata
     2401 cgttccccag tactgcggaa ttgctggaga atttcgtata ttcttatgct gtaacttctt
     2461 gataaattag aaatattttt aatgacgact ctggtgaatt gccccttcaa ctgtgtcaga
     2521 taaggcatta ccgcgtcaga aaaagtgatt tgtgctttcc cctctcccct cgcgtactgt
     2581 gcccgatact gaatccagcg gaactcctcg cgcttctcgt cgtccttgag aatgatcgac
     2641 ctgtcccaca aacgatcgat cgcttcctgt agctgaacct cggcattttt ccgccccata
     2701 tcagggaatg aatcaaaata ttccgcagct gtaatggtca ttgtcttttg caattcaggt
     2761 gaagctacgt cagtaccgga gttaagtcgg cttatgcaga gcaataagaa acgctgttct
     2821 tgtaaagtta gcttgtaact ggcctcaacc agcgcattgg acttataggc tatcagaggg
     2881 tttgatgtca ttttaaccac caggccaaaa atgaggtgaa ataaaaacct atcaccttta
     2941 gcattggtga gcaattatat tttcaccccc cattttcctg tgaatattac cttaaatctc
     3001 ctcaccttta ccttaaatta cctcacccaa gcaccttaaa ttatatcacc tttaccttaa
     3061 attcccccac ctatgcacgt gtaacgcatt gtttttaatc aggaatttcg accctaaaac
     3121 aagtattaaa aacaagatct taaaaacaag atctaaaaac ttaacggcga gcctgtggat
     3181 aacttggggt gctgaaaata aaaatcaaat aaaaacaatg tattgcaaaa aatcaggatt
     3241 gaaaattccg aatacacccc ctccaaccct gtggaaatcc agtattcatg cgggttcagc
     3301 gcatatcacc tgtcgaaaaa ccgtgcgtat gtgctcaacc tggcgactga ttcacttccg
     3361 cttcctcgcc cactcgctcg ctaacgttcg gtcgctgggc tgcggcgagc ggacgataca
     3421 atcactgctc tggcagcgcc tccagctcgt taatcagcgg cagtattcgc gtcacatcag
     3481 cctgccgtgt cacctctgcc ttcaggaact ggagtaacca agctcgcaac tgcacttcct
     3541 ccggctttct gacctttgcc agcaatgctg cacccacaat gaccttctgc gctgtgtcca
     3601 ggctccggct cttcgccttc aggcgctgta atctggcctc agcttcggca atcttctgtt
     3661 cgagtgttct gctcatttcg tgactccgtg cgcggtgaaa aatcgcattt tagcgcgtca
     3721 ctggtagttt aaaaactgag ctggcataat gcacggcaaa tcacgaagtg cgcacttata
     3781 caatctccac tccgtttcga ttgtgtgcgc cctgcggggc tgaaagaaaa ctgcaaaaag
     3841 gcattacggc agaaatggcg atttatcatc tcagtatgaa aatcatctcc agaagcaacg
     3901 gctacagcgc cgttgcttct gctgcctatc gttctggttc actaatgctt gatgagcgta
     3961 ccggactgac tcacgactac acccgcaaaa gcggtgtggc tgaggctgtg attctgaccc
     4021 ccgcgacagc ccctgcctgg tgtacgaacc gtgccgaact ctggaatgcc gttgag
//
