LOCUS       NZ_CP043291             3372 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain WCHEC025985 plasmid p4_025985, complete
            sequence.
ACCESSION   NZ_CP043291
VERSION     NZ_CP043291.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12158048
            Assembly: GCF_022559025.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3372)
  AUTHORS   Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain WCHEC025985
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3372)
  AUTHORS   Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-AUG-2019) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022559025.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:20:03
            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)                     :: 5,230
            CDSs (total)                      :: 5,108
            Genes (coding)                    :: 4,788
            CDSs (with protein)               :: 4,788
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 320
            CDSs (without protein)            :: 320
            Pseudo Genes (ambiguous residues) :: 0 of 320
            Pseudo Genes (frameshifted)       :: 97 of 320
            Pseudo Genes (incomplete)         :: 228 of 320
            Pseudo Genes (internal stop)      :: 47 of 320
            Pseudo Genes (multiple problems)  :: 48 of 320
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP043291.1.
            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 coli"
                     /mol_type="genomic DNA"
                     /strain="WCHEC025985"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p4_025985"
                     /geo_loc_name="China: Chengdu, Sichuan"
                     /collection_date="2018-05"
     gene            37..360
                     /locus_tag="FYK42_RS25970"
                     /old_locus_tag="FYK42_26440"
     CDS             37..360
                     /locus_tag="FYK42_RS25970"
                     /old_locus_tag="FYK42_26440"
                     /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            569..>1006
                     /locus_tag="FYK42_RS25975"
                     /old_locus_tag="FYK42_26445"
                     /pseudo=""
     CDS             569..>1006
                     /locus_tag="FYK42_RS25975"
                     /old_locus_tag="FYK42_26445"
                     /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            1038..1598
                     /locus_tag="FYK42_RS25980"
                     /old_locus_tag="FYK42_26450"
     CDS             1038..1598
                     /locus_tag="FYK42_RS25980"
                     /old_locus_tag="FYK42_26450"
                     /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_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            1605..1838
                     /locus_tag="FYK42_RS25985"
                     /old_locus_tag="FYK42_26455"
     CDS             1605..1838
                     /locus_tag="FYK42_RS25985"
                     /old_locus_tag="FYK42_26455"
                     /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(3154..3345)
                     /locus_tag="FYK42_RS25990"
                     /old_locus_tag="FYK42_26465"
     CDS             complement(3154..3345)
                     /locus_tag="FYK42_RS25990"
                     /old_locus_tag="FYK42_26465"
                     /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          2991..3073
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.905"
                     /coverage="95.0"
                     /evalue="3.18e-17"
     Typing          351..1921
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.817"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttgttagggg gaatgatacc gatgaaacgc gagaagatgc tcacgatacg ggttaccgat
       61 gaggagcacg cccggttact ggaacgctgc gagggtaaac gactggcgga atggatgcgg
      121 cgggtctgtc tgggggagcc ggttgcacgc acaggaaaac tgccgacact ggcaccgcca
      181 ttgctgcggc atctggctgc catcgggaac aacctgaacc agacagcccg gaaggtgaac
      241 agcggccagt ggtcttcgat tgaccgggtt catgtggtgg ccgcactgat ggccatcgag
      301 ggtgaattgc gccagttgcg gcaggctgtc agggaacagg gggtacggga tgatagttaa
      361 atttcatgcc agggggaaag gcggtggaag tggcccggtc gattacctgc tggggcggga
      421 gcgtaaccgc gaaggcgcaa cggtgctccg gggtaacccg gaagaagtgc gggaactcat
      481 tgattccacg ccattttcga agaaatacac gtcaggcgtt ctgtcgttcg cggagaagga
      541 gctaccaccg ggtgaacgcg aaagagtgat gacgagcttt gagcgtgttc ttatgcccgg
      601 tctcgaaaaa gaccagtaca gcattctctg ggtggaacac caggataagg ggcggctcga
      661 actgaatttt gtcatcccga acatggagct acagagcggt aagcgcctcc agccgtacta
      721 cgaccgtgcg gacaggccga ggataaatgc ctggcagacg ctggttaatc atcattacgg
      781 gctgcgtgac ccgaacgcac cggagaacag acggacgctt gtcacgccaa ataatctgcc
      841 aaaagcgaaa caggaggccg cagaagcgat tacacggggt cttgaggctc tttaccatgc
      901 cggagcaata aaaacgcgtc aggatgtcac agaggcgctt acagcggcag gttttgaggt
      961 ggtgaggaca accaaaagca gcatcagtat tgccgacccg gagggggggc ggaatctcag
     1021 gctaaagggg gcgctgtatg agcaatcttt tacaaatggg aacagacttc gagaagaaac
     1081 tgaaagagcg agccgcttct accgagaaca tgctgaacag cgagttcagg aagctcgaag
     1141 agtctgtaga caaggcactg agcttaaaca ggcagaaaat cagagacgct atcagcgaac
     1201 atacaacatc cgtgaaaaag caactggata cgctgagcac caccgtgagc atgcagttca
     1261 gcaccacaga ggccgaactg tcccggcagc agaaaaaact gctctggcgg gtgatcaaag
     1321 ggcggatact gtttccggcg ctgaccgcgc tcagcgtcac gggcgggatt ttcctggggt
     1381 gctgggggct gatggagtgg caggaaagca agattgcgaa aaatatcctg actatcagag
     1441 agcaggaaaa cacgctggcg aaactcgagg caaaaacctg gggggtgacg ttcgtcaatg
     1501 gcgagaacgg gaaatttctg gtgttgccgg acggggtgaa aggggaaaac acctggacgg
     1561 tgggcgacaa gaacgccgtg aggctggtca gggagtaaac gagtatgacg gaactggaag
     1621 ggcatttgct gaacgcctta gagcatttgc aacaggacta tatgcggcgg ctgaacgagt
     1681 gggagagcgc cttcgcggaa ttgcagaaga tgcacgaggt tacgcaacgg aacaacgcga
     1741 tactgaacga gcgcgtcgtg atattgagtc agcaggtgca gagattagcc gggcaagtgg
     1801 atcgcttgag tcggttattt atcgcgaaca acagctaagg gatgaacagg agcgtgcccg
     1861 gtacagacat gaggtacagg aacgcgcggc acgggttcgg agtgggccat caatggagat
     1921 gtgaccgggg aagtgacgaa atcttgccat tttgacccgt tcgacggctg gggcgagcga
     1981 aacaaatcgt gtgccgtatt tgtgcatagc tatgcaacat cctgaaaacg catttcacgc
     2041 gtttttgggg attcagccag gggaaaacat ggttttttta ctttttgagc gtaaagacgt
     2101 gaaaaatctc gttattgcac ttgcgatctt tcgtcggcgg gagtagaacg aaaacagctc
     2161 gccaggaagg cgagctgttt cgggttcatt gaggtctctg acctcctcaa tgttcctgtg
     2221 gaaactgttg agatccacaa cagaaaccag ttcattcagt ttgcatgaac cttctgtatt
     2281 cttcaagaat ttttcaacag cacagtctcc caggaacccc gaaaaaaacc tgtttttgca
     2341 gatacttgcg tatttgcgag aatcgtttgc ggttggggga gctgtgacga cggcgaccgc
     2401 acgcgtgaga gttccgctac cggcgcagag agtttcatcg acagcggaca cctgatgagt
     2461 tgccacaaaa accgtatgta gcgcggctag attggttgag ttagaccttg gcggcagttc
     2521 ccggtatgtg gtggcgtgac gggtgagatg gtgcggcgaa gacgcatacg tcacgcaggc
     2581 gcgggttctt ccactgacgc gccccgtgat cgatggcctt ggctccgtcc ggcatatcga
     2641 gagcggcaaa ctacccgtcc cttcactggg aggggtgagt tgttgccgtt ccctccgacc
     2701 ttccaccatc cagcatatcg cacgatccca tgtgcaccgc tactcctgat aactccagtg
     2761 caaaaaaaaa aacggatctg catcacaacg agagtgatcc cgccgctcgc cgcagcccca
     2821 gcgaccgaac gtagtgagcg agtgggcgag gaagcggaag agtcacagag gcaagcattg
     2881 tgcacttacg cgcctgtgcc agtgtccgcg tgtgtgttgt ttatcgggcg cgctgttttt
     2941 acgcatctgt gcggcttttt actcctgaca tggtgcactt cccatccact ctgcaccgat
     3001 gcaaaatgag gaaagccagt atacacatcg ctatcgctct gtgactgggt cagggctgcg
     3061 ccccgacacc cgcactgacg cgccctggcg ggcttgtctg ctcccggcat ccgctcacag
     3121 gcaagctgtg aacgtctccg ggagctgcat gtttcagttg ctttcaccgt catcgccgaa
     3181 gcgtgcgagg caactgcggt agagttcgtc ggcgtggtcg tgaagtgatt cgcagatgtc
     3241 tgcctgttcg tccgcgtcca gatcgttgag tttttccagc agggttagcg tctggcttct
     3301 gataaagcga gccatgttaa gggctgtttt ttcctgtttg gtcatggtct taaggctcct
     3361 tgtatggggg at
//
