LOCUS       NZ_CP149971             4018 bp    DNA     circular CON 06-APR-2024
DEFINITION  Escherichia coli strain SLDY13 plasmid pSLDY13-2, complete sequence.
ACCESSION   NZ_CP149971
VERSION     NZ_CP149971.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40590940
            Assembly: GCF_037953405.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4018)
  AUTHORS   Chen,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-MAR-2024) Department of Clinical Laboratory, Shandong
            Provincial Hospital Affiliated to Shandong First Medical University,
            jingshi Road, jinan, Shandong 250000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 60.0x
            Sequencing Technology             :: Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037953405.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 22:40:35
            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)                     :: 4,930
            CDSs (total)                      :: 4,810
            Genes (coding)                    :: 4,563
            CDSs (with protein)               :: 4,563
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 247
            CDSs (without protein)            :: 247
            Pseudo Genes (ambiguous residues) :: 0 of 247
            Pseudo Genes (frameshifted)       :: 83 of 247
            Pseudo Genes (incomplete)         :: 157 of 247
            Pseudo Genes (internal stop)      :: 55 of 247
            Pseudo Genes (multiple problems)  :: 46 of 247
            Pseudo Genes (short protein)      :: 4 of 247
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149971.1.
            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..4018
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SLDY13"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSLDY13-2"
                     /geo_loc_name="China"
                     /lat_lon="36 N 117 E"
                     /collection_date="2019"
                     /collected_by="Department of Clinical Laboratory"
     gene            complement(join(2981..4018,1..342))
                     /locus_tag="WKR17_RS24620"
                     /old_locus_tag="WKR17_24620"
     CDS             complement(join(2981..4018,1..342))
                     /locus_tag="WKR17_RS24620"
                     /old_locus_tag="WKR17_24620"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_339110175.1"
                     /translation="MRELIDASPYAKKYTSGVLSFAEQDLPPGQREKLMASFERVLMPG
                     LDKDQYSVLWVEHRDKGRLELNFLIPNTELLTGRRLQPYYDRADRPRIDAWQTIVNGRL
                     GLHDPNAPENRRALVTPSALPEAKQEAAQAITRGLLSLASSGELKTRQDVTEALESAGF
                     EVVRTTKSSISIADPDGGRNIRLKGAIYEQSFNAGEGLRAEIESAAADYRRDAESRIQR
                     AREVCQSGTERKREENQRRHPRPRPEAVLSHEPTHERDAAYDQPDVADHSPGLRATDRL
                     ERGHSVVAGATDTRQLHDHPGTEEHAGHAFREEQRRPAHDLRGGETPLREGEPGSGKIR
                     RGFELDDTGGEIAHDGTGKTVAERIRAATAGLLEKAGRVGERLRGMADDVWAYATGERG
                     AERARHGLEQAGAEFERSAAPIVARLNGIEAHREQERAAQHQKALELERSQRQKGFELG
                     M"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(449..772)
                     /locus_tag="WKR17_RS24625"
                     /old_locus_tag="WKR17_24625"
     CDS             complement(449..772)
                     /locus_tag="WKR17_RS24625"
                     /old_locus_tag="WKR17_24625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_024191642.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQICLDEKPSRAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGTGHDRVQVVAVLMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1420..1533
                     /locus_tag="WKR17_RS24630"
                     /old_locus_tag="WKR17_24630"
     CDS             1420..1533
                     /locus_tag="WKR17_RS24630"
                     /old_locus_tag="WKR17_24630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_072035093.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHDKTPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(1962..2174)
                     /locus_tag="WKR17_RS24635"
                     /old_locus_tag="WKR17_24635"
     CDS             complement(1962..2174)
                     /locus_tag="WKR17_RS24635"
                     /old_locus_tag="WKR17_24635"
                     /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="WP_034169353.1"
                     /translation="MGDFERTFGAGADFDRIIDENNSEYFREDRRKTKNSKKKFSSFQD
                     ALVWAKANPGKTIIRSPDGVGFIEK"
                     /name="hypothetical protein"
     gene            complement(2429..2956)
                     /locus_tag="WKR17_RS24640"
                     /old_locus_tag="WKR17_24640"
     CDS             complement(2429..2956)
                     /locus_tag="WKR17_RS24640"
                     /old_locus_tag="WKR17_24640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004883515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016246513.1"
                     /translation="MKCFWACSVSVVLAMSFTVAAAENNDNVTYTKPSAGRDLYLTCKG
                     YQVKGASVINVEKPSYLEGTGEQVEFAIITPVGASDGLKVFFDSWGFSSFGLIESHVMH
                     EHWSLVHVGGRASVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCMNSDKRPSWVEKIY
                     TRTGVFRGGIED"
                     /name="hypothetical protein"
     Typing          complement(886..1063)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.222"
                     /coverage="83.0"
                     /evalue="4.5e-50"
     Typing          1010..1533
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.434"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2..459)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.386"
                     /coverage="99.0"
                     /evalue="7.63e-94"
     Typing          complement(2994..4018)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="84.795"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gttttccggc gcgttcgggt cgtgcagccc cagtctgccg ttcactatgg tctgccaggc
       61 atcaatgcgc ggacggtcgg cgcggtcgta atacggctgg agacgtctgc cggtcagcag
      121 ctccgtgttc gggatcagga agttcagctc cagccgccct ttgtcccggt gctcaaccca
      181 cagtacgctg tactggtctt tatcgagtcc gggcatcaga acccgctcaa agctcgccat
      241 cagcttttca cgctggccgg gcggcaaatc ctgttcggca aaagacagca cgccggaggt
      301 gtatttcttg gcgtaaggcg aggcgtcaat aagctcccgc acttcctccg gcttaccctg
      361 cagaacgctg gcgccgtcgc gctgccggtc tttccccagc agataatcca ccggaccgcc
      421 gccaccgccg cggcctctgg gatgaaactt aacgatcatc gtctgccccc ttttccagca
      481 cggcgtgccg cagccgctcg agtccggcat caatggccat cagcacggcg acaacctgca
      541 cgcgatcgtg cccagtaccg ccaccggcgt taacctgccg ggcaatctgg ttgaggttgt
      601 tacccatgcc ggcaagctga cgaagcagcg ccggcgagat ggatggaagt ttgccagcac
      661 gcgagggctt ttcgtccagg catatctggc gcatccaggc cgcgagttgt ttaccctcac
      721 agcgctccag aagtcggcgg tgctcgtctt ctgtcaccca catagtgagc attttgttgc
      781 gcttttctgc caaaccatcc tccggataac accggttcgg gcgggaaatt ttttcctgtc
      841 cggagcggtg ttgggcaagc ccgcagggcg cggcagtact tttcagcggg tttcggggcg
      901 cagccctgaa ccagtcacgt agcgctagcg gagtgtatac tggcttaaca tggtaaatcg
      961 gagtggggat tcaggaaagt gcttcatgtg gcagggagaa aatgctgctg tggggcgtaa
     1021 gtgcgaaatg cagatcccgg tgaaatgacg cctcctcgct cactcggtcg ctgcgctcct
     1081 gccgtgagac tgcggcgggc gttgccagct tacgaatggc tggataaaga gactaagcgg
     1141 aaatcaatca gaaagggcgg aaaaaggatg cggcgttgcc gtttttccat aggctccgcc
     1201 cccctgacaa gcatcacgaa atctgacgct caaatcagtg gtggcgaaac ccgacaggac
     1261 tataaagatc ccaggcgttt ccccctggta gctccctcgt gcgctctcct gttcctgcct
     1321 ttcggtttac cggtgtcatt ccgctgttat ggccgcgttt atctaattcc acgcctgaca
     1381 ctcagttccg ggtaggcagt tcgctccaag ctggactgta tgcacgaacc ccccgttcag
     1441 tccgaccgct gcgccttatc cggtaactat cgacttgagt ccaacccgga aagacacgac
     1501 aaaacgccac tggcagcagc cactggtaac tgatttagag gagttagtct tgaagttatg
     1561 cgccggttaa ggctaaactg aaaggacaag ttttggtgac tgtgctcctc caagccagtt
     1621 acctcggttc aaagagttgc tgctctgaga accttcgaaa aaaccgcctt gctgggcggt
     1681 tttttcgttt acagtgctaa gagattacga ttctccatga atgatctcaa gaagatccgt
     1741 ttaaaaaagc gggttttatg gggggataaa gttcgtctag cccagtcact ttggattaca
     1801 gctaggtttc gtaagccatg caagaatgcc tgtaactaac aaaataggcc ctgcaacgta
     1861 cgtaacatag actccaacat acgacactgt gaaacatatg agtacgtata tagacagtgt
     1921 tgtccaaaaa atgactgttg ttttacagtg aatccactct ttcatttttc aataaacccc
     1981 acaccgtctg gagatcttat tatcgttttg ccaggattag ctttcgccca aaccaaagca
     2041 tcttgaaaag aagagaattt tttttttgaa tttttagttt ttcggcgatc ttctcgaaaa
     2101 tattcgctgt tattctcatc aattatccga tcaaaatcag caccagctcc aaaggtacgc
     2161 tcaaaatccc ccattttctg cccccattaa atttaataaa aaaacagatt taaaatatcc
     2221 aaaagacact cttatttacc ataacatccc ttgttcgcac cgccgcagac agcctcagca
     2281 ccgttctgcg ccatgaaccg caaaagagca cctcttacca cgtaaaaacg ccgataaatg
     2341 ccccccgtaa gttcttacgg tatgcatagt tatgcacgga aatgaactga cactctgttc
     2401 aatggatttt catgctgtaa gcagtatttt agtcttctat gccccctcga aacacacctg
     2461 ttcttgtgta gatcttttcg acccaagatg gtcttttatc cgagttcatg cagccgtaca
     2521 ggaacacacc tgttttgggt ttatagctcc ccccctcctg tggctggtta tctacaaatg
     2581 aataatcaat cttttcacct ttgactgaag cacgcccccc aacatgaact aaagaccagt
     2641 gctcatgcat cacatggctt tcaatcaatc caaatgaaga aaaaccccat gaatcaaaaa
     2701 agaccttgag tccgtcagac gcaccaacag gagtaatgat tgcaaattca acctgctcac
     2761 cagtaccttc aaggtaagaa ggtttctcga cgttaattac agatgccccc ttcacctgat
     2821 aacctttaca ggtaagatat aagtccctcc cggctgacgg ttttgtatat gtaacgttgt
     2881 cgttattctc cgcagcagcg actgtaaatg acatagccaa aaccaccgag actgagcaag
     2941 cccagaaaca tttcataacg catccctttt cattgattaa ctacattcca agctcaaaac
     3001 ctttctgccg ctgcgatcgt tccagctcca gcgctttctg gtgctgcgcc gcgcgctcct
     3061 gctcccggtg cgcctcgatg ccattcagcc ttgcgacaat cggcgcagct gatcgctcaa
     3121 actctgcacc tgcctgctca agcccgtgac gcgctcgctc agcgccgcgt tctcccgttg
     3181 cataagccca gacatcgtcc gccattccgc gaaggcgttc tcccactcgt ccagcctttt
     3241 cgagtagtcc tgctgtagct gctctaatgc gctcagcaac tgtttttcca gttccgtcat
     3301 gtgctatttc cccgccagta tcatccagct cgaatcctct ccgaatcttc ccgcttccgg
     3361 gttcaccctc acgcagcggc gtctctcctc cccgcaggtc gtgagctgga cgccgttgtt
     3421 cttctctgaa agcatggcct gcgtgctctt ctgttcctgg atggtcgtgt agttgtcgag
     3481 tatctgttgc ccctgccacc acagaatgcc cgcgctcgag gcgatcagta gcgcggagac
     3541 caggactatg gtcagccacg tctggctgat catacgcagc atccctttcg tgcgttggct
     3601 catggctgag gacagcttcc ggtcgtggtc gaggatggcg gcgctgattc tcttctcgct
     3661 ttcgctcagt tccgctctga cagacttctc gtgctcgctg aatgcggctt tcagcatctc
     3721 gccggtagtc tgctgctgcg ctttcgattt ctgctctaag tccttcgcca gcgttaaaag
     3781 actgttcata gatggctccc ttcagtcgga tgtttcgccc cccgtcaggg tcggcaatgc
     3841 tgatgctgct tttcgtggtg cgcaccacct caaaacccgc actttccagc gcctcagtga
     3901 cgtcctgacg ggttttcagc tccccggatg aggcaaggga aagtaggccg cgcgtaatcg
     3961 cctgggcggc ttcctgcttc gcttccggca gcgcggacgg tgtaaccagc gcccgccg
//
