LOCUS       NZ_CP099356             3372 bp    DNA     circular CON 15-APR-2024
DEFINITION  Escherichia marmotae strain RHB02-E4-C07 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP099356
VERSION     NZ_CP099356.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15488490
            Assembly: GCF_029717905.1
KEYWORDS    RefSeq.
SOURCE      Escherichia marmotae
  ORGANISM  Escherichia marmotae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3372)
  AUTHORS   Matlock,W.
  TITLE     Plasmid overlap and evolution between Enterobacterales isolates from
            bloodstream infections and non-human compartments
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3372)
  AUTHORS   Matlock,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2022) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Assembly Name                     :: RHB02-E4-C07
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 135x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029717905.1-RS_2024_04_14
            Annotation Date                   :: 04/14/2024 22:21:28
            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)                     :: 4,620
            CDSs (total)                      :: 4,502
            Genes (coding)                    :: 4,336
            CDSs (with protein)               :: 4,336
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 166
            CDSs (without protein)            :: 166
            Pseudo Genes (ambiguous residues) :: 0 of 166
            Pseudo Genes (frameshifted)       :: 53 of 166
            Pseudo Genes (incomplete)         :: 120 of 166
            Pseudo Genes (internal stop)      :: 24 of 166
            Pseudo Genes (multiple problems)  :: 30 of 166
            Pseudo Genes (short protein)      :: 3 of 166
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP099356.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3372
                     /organism="Escherichia marmotae"
                     /mol_type="genomic DNA"
                     /strain="RHB02-E4-C07"
                     /isolation_source="Pooled sediment sample collected from
                     floor of pig farm"
                     /db_xref="taxon:1499973"
                     /plasmid="unnamed5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            34..357
                     /locus_tag="NFJ26_RS23040"
                     /old_locus_tag="NFJ26_22940"
     CDS             34..357
                     /locus_tag="NFJ26_RS23040"
                     /old_locus_tag="NFJ26_22940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001696562.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     APPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            566..>1003
                     /locus_tag="NFJ26_RS23045"
                     /old_locus_tag="NFJ26_22945"
                     /pseudo=""
     CDS             566..>1003
                     /locus_tag="NFJ26_RS23045"
                     /old_locus_tag="NFJ26_22945"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1035..1595
                     /locus_tag="NFJ26_RS23050"
                     /old_locus_tag="NFJ26_22950"
     CDS             1035..1595
                     /locus_tag="NFJ26_RS23050"
                     /old_locus_tag="NFJ26_22950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067486.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGMKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            1602..1835
                     /locus_tag="NFJ26_RS23055"
                     /old_locus_tag="NFJ26_22955"
     CDS             1602..1835
                     /locus_tag="NFJ26_RS23055"
                     /old_locus_tag="NFJ26_22955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3151..3342)
                     /locus_tag="NFJ26_RS23060"
                     /old_locus_tag="NFJ26_22960"
     CDS             complement(3151..3342)
                     /locus_tag="NFJ26_RS23060"
                     /old_locus_tag="NFJ26_22960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2987..3070
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.059"
                     /coverage="95.0"
                     /evalue="8.83e-18"
     Typing          348..1918
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.628"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttagggggaa tgataccgat gaaacgcgag aagatgctca cgatacgggt taccgatgag
       61 gagcacgccc ggttactgga acgctgcgag ggtaaacgac tggcggaatg gatgcggcgg
      121 gtctgtctgg gggagccggt tgcacgcaca ggaaaactgc cgacactggc accgccattg
      181 ctgcggcatc tggctgccat cgggaacaac ctgaaccaga cagcccggaa ggtgaacagc
      241 ggccagtggt cttcgattga ccgggttcat gtggtggccg cactgatggc catcgagggt
      301 gaattgcgcc agttgcggca ggctgtcagg gaacaggggg tacgggatga tagttaaatt
      361 tcatgccagg gggaaaggcg gtggaagtgg cccggtcgat tacctgctgg ggcgggagcg
      421 taaccgcgaa ggcgcaacgg tgctccgggg taacccggaa gaagtgcggg aactcattga
      481 ttccacgcca ttttcgaaga aatacacgtc aggcgttctg tcgttcgcgg agaaggagct
      541 accaccgggt gaacgcgaaa gagtgatgac gagctttgag cgtgttctta tgcccggtct
      601 cgaaaaagac cagtacagca ttctctgggt ggaacaccag gataaggggc ggctcgaact
      661 gaattttgtc atcccgaaca tggagctaca gagcggtaag cgcctccagc cgtactacga
      721 ccgtgcggac aggccgagga taaatgcctg gcagacgctg gttaatcatc attacgggct
      781 gcgtgacccg aacgcaccgg agaacagacg gacgcttgtc acaccgaata atctgccaaa
      841 agcgaaacag gaggccgcag aagcgattac acggggtctt gaggcgcttt accatgccgg
      901 agcaataaaa acgcgtcagg atgtcactga ggcgctcaca gcggcaggtt ttgaggtggt
      961 gaggacaacc agaagcagta tcagtattgc cgacccggag ggggggcgga atctcaggct
     1021 aaagggggcg ctgtatgagc aatcttttac aaatgggaac agacttcgag aagaaactga
     1081 aagagcgagc cgcttctacc gagaacatgc tgaacagcga gttcaggaag ctcgaagagt
     1141 ctgtagacaa ggcattgagc ttaaacaggc agaaaatcag agacgctatc agcgaacata
     1201 caacatccgt gaaaaagcaa ctggatacgc tgagcaccac cgtgagcatg cagttcagca
     1261 ccacagaggc cgaactgtcc cggcagcaga aaaaactgct ctggcgggtg atcaaagggc
     1321 ggatactgtt tccggcgctg accgcgctca gcgtcacggg cgggattttc ctggggtgct
     1381 gggggctgat ggagtggcag gaaagcaaga ttgcgaaaaa tatcctgact atcagagagc
     1441 aggaaaacac gctggcgaaa ctcgaggcaa aaacctgggg ggtgacgttc gtcaatggcg
     1501 agaacgggaa atttctggtg ttgccggacg ggatgaaagg ggaaaacacc tggacggtgg
     1561 gcgacaagaa cgccgtgagg ctggtcaggg agtaaacgag tatgacggaa ctggaagggc
     1621 atttgctgaa cgccttagag catttgcaac aggactatat gcggcggctg aacgagtggg
     1681 agagcgcctt cgcggaattg cagaagatgc acgaggttac gcaacggaac aacgcgatac
     1741 tgaacgagcg cgtcgtgata ttgagtcagc aggtgcagag attagccggg caagtggatc
     1801 gcttgagtcg gttatttatc gcgaacaaca gctaagggat gaacaggagc gtgcccggta
     1861 cagacatgag gtacaggaac gcgcggcacg ggttcggagt gggccatcaa tggagatgtg
     1921 accggggaag tgacgaaatc ttgccatttt gacccgttcg acggctgggg cgagcgaaac
     1981 aaatcgtgtg ccgtatttgt gcatagctat gcaacatcct gaaaacgcat ttcacgcgtt
     2041 tttggggatt cagccagggg aaaacatggt ttttttactt tttgagcgta aagacgtgaa
     2101 aaatctcgtt attgcacttg cgatctttcg tcggcgggcg tagaacgaaa acagctcgcc
     2161 aggaaggcga gctgtttcgg gttcattgag gtctctgacc tcctcaatgt tcctgtggaa
     2221 actgttgaga tccacaacag aaaccagttc attcagtttg catgagcctt ctgtattctt
     2281 caagaatttt tcaacagcac agtctcccag gaaccccgaa aaaaacctgt ttttgcagat
     2341 acttgcgtat ttgcgagaat cgtttgcggt tgggggagct gtgacgacgg cgaccgcacg
     2401 cgtgagagtt ccgctaccgg cgcagagagt ttcatcgaca gcggacacct gatgagttgc
     2461 cacaaaaacc gtatgtagcg cggctagatt ggttgagtta gaccttggcg gcagttcccg
     2521 gtatgtggtg gcgtgacggg tgagatggtg cggcgaagac gcatacgtca cgcaggcgcg
     2581 ggttcttcca ctgacgcgcc ccgtgatcga tggccttggc tccgtccggc atatcgagag
     2641 cggcaaacta cccgtccctt cactgggagg ggtgagttgt tgccgttccc tccgaccttc
     2701 caccatccag catatcgcac gatcccatgt gcaccgctac tcctgataac tccagtgcaa
     2761 aaaaaaaacg gatctgcatc acaacgagag tgatcccacc gctcgccgca gccccagcga
     2821 ccgaacgtag tgagcgagtg ggcgaggaag cggaagagtc acagaggcaa gcattgtgca
     2881 cttacgcgcc tgtgccagtg tccgcgtgtg tgttgtttat cgggcgcgct gtttttacgc
     2941 atctgtgcgg ctttttactc ctgacatggt gcacttccca tccactctgc accgatgcaa
     3001 aatgaggtaa gccagtatac acatcgctat cgctctgtga actgggtcag ggctgcgccc
     3061 cgacacccgc actgacgcgc cctggcgggc ttgtctgctc ccggcatccg ctcacaggca
     3121 agctgtgaac gtctccggga gctgcatgtt tcagttgctt tcaccgtcat cgccgaagcg
     3181 tgcgaggcaa ctgcggtaga gttcgtcggc gtggtcgtga agtgattcgc agatgtctgc
     3241 ctgttcgtcc gcgtccagat cgttgagttt ttccagcagg gtcagcgtct ggcttctgat
     3301 aaagcgagcc atgttaaggg ctgttttttc ctgtttggtc atggtcttaa ggctccttgt
     3361 atgggggatt tg
//
