LOCUS       NZ_CP021100             6162 bp    DNA     circular CON 05-MAR-2024
DEFINITION  Escherichia coli strain 13P477T plasmid p13P477T-10, complete
            sequence.
ACCESSION   NZ_CP021100
VERSION     NZ_CP021100.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06219553
            Assembly: GCF_002951655.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6162)
  AUTHORS   Ho,P.L., Lau,A., Liu,C.J., Lai,E.L.Y., Chow,K.H., Tse,C.W.S. and
            Que,T.L.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAY-2017) Microbiology, The University of Hong Kong,
            102 Pok Fu Lam Road, Hong Kong, Hong Kong
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. Nov-2016
            Genome Coverage                   :: 200
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/05/2024 04:11:45
            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)                     :: 5,487
            CDSs (total)                      :: 5,362
            Genes (coding)                    :: 5,063
            CDSs (with protein)               :: 5,063
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 299
            CDSs (without protein)            :: 299
            Pseudo Genes (ambiguous residues) :: 0 of 299
            Pseudo Genes (frameshifted)       :: 156 of 299
            Pseudo Genes (incomplete)         :: 162 of 299
            Pseudo Genes (internal stop)      :: 54 of 299
            Pseudo Genes (multiple problems)  :: 69 of 299
            Pseudo Genes (short protein)      :: 4 of 299
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP021100.1.
            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..6162
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="13P477T"
                     /isolation_source="stool"
                     /host="pig"
                     /db_xref="taxon:562"
                     /plasmid="p13P477T-10"
                     /geo_loc_name="Hong Kong"
                     /collection_date="2013-04"
     gene            21..578
                     /locus_tag="BWI89_RS29480"
     CDS             21..578
                     /locus_tag="BWI89_RS29480"
                     /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_158666932.1"
                     /translation="MRELIDSTPFSKKYTSGVLSFAEKELPPGERERVMTSFERVLMPG
                     LEKDQYSILWVEHQDKGRLELNFVIPNMELQSGKRLQPYYDRADRPRINAWQTLVNHHY
                     GLRDPNAPENRRTLVTPNNLPKAKQEAAEAITRGLEALYHAGAIKTRQDVTEALTAAGF
                     EVVRTTKSSISIADPEGGGISG"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            591..1151
                     /locus_tag="BWI89_RS29485"
     CDS             591..1151
                     /locus_tag="BWI89_RS29485"
                     /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            1158..1391
                     /locus_tag="BWI89_RS29490"
     CDS             1158..1391
                     /locus_tag="BWI89_RS29490"
                     /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(2707..2898)
                     /locus_tag="BWI89_RS28305"
                     /old_locus_tag="BWI89_28285"
     CDS             complement(2707..2898)
                     /locus_tag="BWI89_RS28305"
                     /old_locus_tag="BWI89_28285"
                     /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"
     gene            2962..3285
                     /locus_tag="BWI89_RS28310"
                     /old_locus_tag="BWI89_28290"
     CDS             2962..3285
                     /locus_tag="BWI89_RS28310"
                     /old_locus_tag="BWI89_28290"
                     /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            3275..4009
                     /locus_tag="BWI89_RS30330"
     CDS             3275..4009
                     /locus_tag="BWI89_RS30330"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_236919644.1"
                     /translation="MIVKFHARGKGGGSGPVDYLLGRERNREGATVLRGNPEEVRELID
                     STPFSKKYTSGVLSFAEKELPPGERERVMTSFERVLMPGLEKDQYSILWVEHQDKGRLE
                     LNFVIPNMELQSGKRLQPYYDRADRPRINAWQTLVNHHYGLRDPNAPENRRTLVTPNNL
                     PKAKQEAAEAITRGLEALYHAGAIKTRQDVTEALTAAGFEVVRTTKSSISIADPEGGRN
                     LRLKGALYEQSFTNGNRLREEN"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            4036..4467
                     /locus_tag="BWI89_RS30335"
     CDS             4036..4467
                     /locus_tag="BWI89_RS30335"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_236919645.1"
                     /translation="MLNSEFRKLEESVDKALSLNRQKNQRRYQRTYNIREKATGYAEHH
                     REHAVQHHRGRTVPAAEKTALAGDQRADTVSGADRAQRHGRDFPGVLGADGVAGKQDCE
                     KYPDYQRAGKHAGETRGKNLGGDVRQWREREISWCCRTG"
                     /name="hypothetical protein"
     gene            4533..4768
                     /locus_tag="BWI89_RS30340"
                     /pseudo=""
     CDS             4533..4768
                     /locus_tag="BWI89_RS30340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(6081..>6161)
                     /locus_tag="BWI89_RS28325"
                     /pseudo=""
     CDS             complement(6081..>6161)
                     /locus_tag="BWI89_RS28325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2543..2626
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.882"
                     /coverage="95.0"
                     /evalue="4.11e-16"
     Typing          5919..6002
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.882"
                     /coverage="95.0"
                     /evalue="4.11e-16"
     Typing          552..1474
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="88.498"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3276..4006
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.541"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tccggggtaa cccggaagaa gtgcgggaac tcattgattc cacgccattt tcgaagaaat
       61 acacgtcagg cgttctgtcg ttcgcggaga aggagctacc accgggtgaa cgcgaaagag
      121 tgatgacgag ctttgagcgt gttcttatgc ccggtctcga aaaagaccag tacagcattc
      181 tctgggtgga acaccaggat aaggggcggc tcgaactgaa ttttgtcatc ccgaacatgg
      241 agctacagag cggtaagcgc ctccagccgt actacgaccg tgcggacagg ccgaggataa
      301 atgcctggca gacgctggtt aatcatcatt acgggctgcg tgacccgaac gcaccggaga
      361 acagacggac gcttgtcacg ccaaataatc tgccaaaagc gaaacaggag gccgcagaag
      421 cgattacacg gggtcttgag gctctttacc atgccggagc aataaaaacg cgtcaggatg
      481 tcacagaggc gcttacagcg gcaggttttg aggtggtgag gacaaccaaa agcagcatca
      541 gtattgccga cccggagggg ggcggaatct caggctaaag ggggcgctgt atgagcaatc
      601 ttttacaaat gggaacagac ttcgagaaga aactgaaaga gcgagccgct tctaccgaga
      661 acatgctgaa cagcgagttc aggaagctcg aagagtctgt agacaaggca ttgagcttaa
      721 acaggcagaa aatcagagac gctatcagcg aacatacaac atccgtgaaa aagcaactgg
      781 atacgctgag caccaccgtg agcatgcagt tcagcaccac agaggccgaa ctgtcccggc
      841 agcagaaaaa actgctctgg cgggtgatca aagggcggat actgtttccg gcgctgaccg
      901 cgctcagcgt cacgggcggg attttcctgg ggtgctgggg gctgatggag tggcaggaaa
      961 gcaagattgc gaaaaatatc ctgactatca gagagcagga aaacacgctg gcgaaactcg
     1021 aggcaaaaac ctggggggtg acgttcgtca atggcgagaa cgggaaattt ctggtgttgc
     1081 cggacggggt gaaaggggaa aacacctgga cggtgggcga caagaacgcc gtgaggctgg
     1141 tcagggagta aacgagtatg acggaactgg aagggcattt gctgaacgcc ttagagcatt
     1201 tgcaacagga ctatatgcgg cggctgaacg agtgggagag cgccttcgcg gaattgcaga
     1261 agatgcacga ggttacgcaa cggaacaacg cgatactgaa cgagcgcgtc gtgatattga
     1321 gtcagcaggt gcagagatta gccgggcaag tggatcgctt gagtcggtta tttatcgcga
     1381 acaacagcta agggatgaac aggagcgtgc ccggtacaga catgaggtac aggaacgcgc
     1441 ggcacgggtt cggagtgggc catcaatgga gatgtgaccg gggaagtgac gaaatcttgc
     1501 cattttgacc cgttcgacgg ctggggcgag cgaaacaaat cgtgtgccgt atttgtgcat
     1561 agctatgcaa catcctgaaa acgcatttca cgcgtttttg gggattcagc caggggaaaa
     1621 catggttttt ttactttttg agcgtaaaga cgtgaaaaat ctcgttattg cacttgcgat
     1681 ctttcgtcgg cgggcgtaga acgaaaacag ctcgccagga aggcgagctg tttcgggttc
     1741 attgaggtct ctgacctcct caatgttcct gtggaaactg ttgagatcca caacagaaac
     1801 cagttcattc agtttgcatg agccttctgt attcttcaag aatttttcaa cagcacagtc
     1861 tcccaggaac cccgaaaaaa acctgttttt gcagatactt gcgtatttgc gagaatcgtt
     1921 tgcggttggg ggagctgtga cgacggcgac cgcacgcgtg agagttccgc taccggcgca
     1981 gagagtttca tcgacagcgg acacctgatg agttgccaca aaaaccgtat gtagcgcggc
     2041 tagattggtt gagttagacc ttggcggcag ttcccggtat gtggtggcgt gacgggtgag
     2101 atggtgcggc gaagacgcat acgtcacgca ggcgcgggtt cttccactga cgcgccccgt
     2161 gatcgatggc cttggctccg tccggcatat cgagagcggc aaactacccg tcccttcact
     2221 gggaggggtg agttgttgcc gttccctccg accttccacc atccagcata tcgcacgatc
     2281 ccatgtgcac cgctactcct gataactcca gtgcaaaaaa aaaacggatc tgcatcacaa
     2341 cgagagtgat cccaccgctc gccgcagccc cagcgaccga acgtagtgag cgagtgggcg
     2401 aggaagcgga agagtcacag aggcaagcat tgtgcactta cgcgcctgtg ccagtgtccg
     2461 cgtgtgtgtt gtttatcggg cgcgctgttt ttacgcatct gtgcggcttt ttactcctga
     2521 catggtgcac ttcccatcca ctctgcaccg atgcaaaatg aggaaagcca gtatacacat
     2581 cgctatcgct ctgtgaactg ggtcagggct gcgccccgac acccgcactg acgcgccctg
     2641 gctggcttgt ctgctcccgg catccgctca caggcaagct gtgaacgtct ccgggagctg
     2701 catgtttcag ttgctttcac cgtcatcgcc gaagcgtgcg aggcaactgc ggtagagttc
     2761 gtcggcgtgg tcgtgaagtg attcgcagat gtctgcctgt tcgtccgcgt ccagatcgtt
     2821 gagtttttcc agcagggtta gcgtctggct tctgataaag cgagccatgt taagggctgt
     2881 tttttcctgt ttggtcatgg tcttaaggct ccttgtatgg gggatttgtt agggggaatg
     2941 ataccgatga aacgcgagaa gatgctcacg atacgggtta ccgatgagga gcacgcccgg
     3001 ttactggaac gctgcgaggg taaacgactg gcggaatgga tgcggcgggt ctgtctgggg
     3061 gagccggttg cacgcacagg aaaactgccg acactggcac cgccattgct gcggcatctg
     3121 gctgccatcg ggaacaacct gaaccagaca gcccggaagg tgaacagcgg ccagtggtct
     3181 tcgattgacc gggttcatgt ggtggccgca ctgatggcca tcgagggtga attgcgccag
     3241 ttgcggcagg ctgtcaggga acagggggta cgggatgata gttaaatttc atgccagggg
     3301 gaaaggcggt ggaagtggcc cggtcgatta cctgctgggg cgggagcgta accgcgaagg
     3361 cgcaacggtg ctccggggta acccggaaga agtgcgggaa ctcattgatt ccacgccatt
     3421 ttcgaagaaa tacacgtcag gcgttctgtc gttcgcggag aaggagctac caccgggtga
     3481 acgcgaaaga gtgatgacga gctttgagcg tgttcttatg cccggtctcg aaaaagacca
     3541 gtacagcatt ctctgggtgg aacaccagga taaggggcgg ctcgaactga attttgtcat
     3601 cccgaacatg gagctacaga gcggtaagcg cctccagccg tactacgacc gtgcggacag
     3661 gccgaggata aatgcctggc agacgctggt taatcatcat tacgggctgc gtgacccgaa
     3721 cgcaccggag aacagacgga cgcttgtcac gccaaataat ctgccaaaag cgaaacagga
     3781 ggccgcagaa gcgattacac ggggtcttga ggctctttac catgccggag caataaaaac
     3841 gcgtcaggat gtcacagagg cgcttacagc ggcaggtttt gaggtggtga ggacaaccaa
     3901 aagcagcatc agtattgccg acccggaggg ggggcggaat ctcaggctaa agggggcgct
     3961 gtatgagcaa tcttttacaa atgggaacag acttcgagaa gaaaactgaa agagcgagcc
     4021 gcttctaccg agaacatgct gaacagcgag ttcaggaagc tcgaagagtc tgtagacaag
     4081 gcattgagct taaacaggca gaaaaatcag agacgctatc agcgaacata caacatccgt
     4141 gaaaaagcaa ctggatacgc tgagcaccac cgtgagcatg cagttcagca ccacagaggc
     4201 cgaactgtcc cggcagcaga aaaaactgct ctggcgggtg atcaaagggc ggatactgtt
     4261 tccggcgctg accgcgctca gcgtcacggg cgggattttc ctggggtgct gggggctgat
     4321 ggagtggcag gaaagcaaga ttgcgaaaaa tatcctgact atcagagagc aggaaaacac
     4381 gctggcgaaa ctcgaggcaa aaacctgggg ggtgacgttc gtcaatggcg agaacgggaa
     4441 atttcttggt gttgccggac ggggtgaaag gggaaaacac ctggacggtg ggcgacaaga
     4501 acgccgtgag gctggtcagg gagtaaacga gtatgacgga actggaaggg catttgctga
     4561 acgccttaga gcatttgcaa caggactata tgcggcggcc tgaacgagtg ggagagcgcc
     4621 ttcgcggaat tgcagaagat gcacgaggtt acgcaacgga acaacgcgat actgaacgag
     4681 cgcgttcgtg atattgagtc agcaggtgca gagattagcc gggcaagtgg atcgcttgag
     4741 tcggttattt atcgcgaaca acagctaagg gatgaacagg agcgtgcccg gtacagacat
     4801 gaggtacagg aacgcgcggc acgggttcgg agtgggccat caatggagat gtgaccgggg
     4861 aagtgacgaa atcttgccat tttgacccgt tcgacggctg gggcgagcga aacaaatcgt
     4921 gtgccgtatt tgtgcatagc tatgcaacat cctgaaaacg catttcacgc gtttttgggg
     4981 attcagccag gggaaaacat ggttttttta ctttttgagc gtaaagacgt gaaaaatctc
     5041 gttattgcac ttgcgatctt tcgtcggcgg gcgtagaacg aaaacagctc gccaggaagg
     5101 cgagctgttt cgggttcatt gaggtctctg acctcctcaa tgttcctgtg gaaactgttg
     5161 agatccacaa cagaaaccag ttcattcagt ttgcatgagc cttctgtatt cttcaagaat
     5221 ttttcaacag cacagtctcc caggaacccc gaaaaaaacc tgtttttgca gatacttgcg
     5281 tatttgcgag aatcgtttgc ggttggggag ctgtgacgac ggcgaccgca cgcgtgagag
     5341 ttccgctacc ggcgcagaga gtttcatcga cagcggacac ctgatgagtt gccacaaaaa
     5401 ccgtatgtag cgcggctaga ttggttgagt tagaccttgg cggcagttcc cggtatgtgg
     5461 tggcgtgacg ggtgagatgg tgcggcgaag acgcatacgt cacgcaggcg cgggttcttc
     5521 cactgacgcg ccccgtgatc gatggccttg gctccgtccg gcatatcgag agcggcaaac
     5581 tacccgtccc ttcactggga ggggtgagtt gttgccgttc cctccgacct tccaccatcc
     5641 agcatatcgc acgatcccat gtgcaccgct actcctgata actccagtgc aaaaaaaaaa
     5701 cggatctgca tcacaacgag agtgatccca ccgctcgccg cagccccagc gaccgaacgt
     5761 agtgagcgag tgggcgagga agcggaagag tcacagaggc aagcattgtg cacttacgcg
     5821 cctgtgccag tgtccgcgtg tgtgttgttt atcgggcgcg ctgtttttac gcatctgtgc
     5881 ggctttttac tcctgacatg gtgcacttcc catccactct gcaccgatgc aaaatgagga
     5941 aagccagtat acacatcgct atcgctctgt gaactgggtc agggctgcgc cccgacaccc
     6001 gcactgacgc gccctggctg gcttgtctgc tcccggcatc cgctcacagg caagctgtga
     6061 acgtctccgg gctgcatgtt tcagttgctt tcaccgtcat cgccgaagcg tgcgaggcaa
     6121 ctgcggtaga gttcgtcggc gtggtcgtga agtgattcgc ag
//
