LOCUS       NZ_CP021099             6032 bp    DNA     circular CON 05-MAR-2024
DEFINITION  Escherichia coli strain 13P477T plasmid p13P477T-11, complete
            sequence.
ACCESSION   NZ_CP021099
VERSION     NZ_CP021099.1
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 6032)
  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
            CP021099.1.
            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..6032
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="13P477T"
                     /isolation_source="stool"
                     /host="pig"
                     /db_xref="taxon:562"
                     /plasmid="p13P477T-11"
                     /geo_loc_name="Hong Kong"
                     /collection_date="2013-04"
     gene            complement(86..475)
                     /locus_tag="BWI89_RS28265"
                     /old_locus_tag="BWI89_28240"
     CDS             complement(86..475)
                     /locus_tag="BWI89_RS28265"
                     /old_locus_tag="BWI89_28240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618753.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antitoxin"
                     /protein_id="WP_236919638.1"
                     /translation="MKAEASLRLEGIDPSGIPRYESIKARVISGEITYEQGRAEILAFH
                     TGKCAEPTTAGEMLAEEFLKPLNMSQGELAQATGIPEHHIDDIISNRRRLSAEEPYKLA
                     EQFQTDKDFWLNLQALHDAWLTHQK"
                     /name="HigA family addiction module antitoxin"
     gene            complement(648..2471)
                     /gene="mobQ"
                     /locus_tag="BWI89_RS28270"
                     /old_locus_tag="BWI89_28245"
     CDS             complement(648..2471)
                     /gene="mobQ"
                     /locus_tag="BWI89_RS28270"
                     /old_locus_tag="BWI89_28245"
                     /inference="COORDINATES: protein motif:HMM:NF015354.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_023139326.1"
                     /translation="MAIFHLSVKTISRSAGRSATAAIAYRTGSRIVDERTGITHDYTRK
                     SGVEHSEIFLPQNSPGWASNRETLWNAVEQKENRRNSTVAREFELAFPAELDGKQRLDL
                     LREFCSSLVERHGMAVDAAIHAPGKEGDQRNYHAHVLCSTRRLSEEGFKDKTRELDDFK
                     SGEVNYWRSAWSEMTNRHLEKAGRSERIDHRSLEAQRESAISQGDSAKAAELDRVPTIH
                     IGYAAAQMEKRGIETERGNEHRQIILRNAEIQPLSRAIQLIENWRATHDNNSRAGHGSI
                     APVPARDTGRDRRGVRTAQSNTGRAGAVPPPSARGRLRNLSELDMVRFGERSEMLLPGN
                     VSRDVEHQRTDRNQPLRRENTVTSKPKRPEIIRLEWQRLRRDKLTFVHDKAGRIAARGA
                     AQVERQRQKISSHERQRPEQPSGLIGMFKRSAYEQAASTWQTIKNGLDRRLVQLKNRLG
                     FVRGYMRKSGAYEMSTPGERLADQLAAKENPILAGQIKSLNAQKNAEDMAAYRTRVQSR
                     KQEKADMKLETIEELKQRGDARRDKADKAERAELEKASHQASLQNETIGEETKELESGE
                     KEKLSKRDQVLEKFKAKFERDKQNERGGRGR"
                     /name="mobQ"
     gene            2631..2933
                     /locus_tag="BWI89_RS28275"
                     /old_locus_tag="BWI89_28250"
     CDS             2631..2933
                     /locus_tag="BWI89_RS28275"
                     /old_locus_tag="BWI89_28250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008451932.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023139325.1"
                     /translation="MAKSRAEKLEELRQKEAQIKAQIQQLKQREQTEERKKDTRRKILI
                     GGAVLAKIKRGEWNYHQLVSLLDNELKNDRDRALFDEMGLKAVDARKESFNPGNK"
                     /name="hypothetical protein"
     gene            2981..3343
                     /locus_tag="BWI89_RS28280"
                     /old_locus_tag="BWI89_28255"
     CDS             2981..3343
                     /locus_tag="BWI89_RS28280"
                     /old_locus_tag="BWI89_28255"
                     /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_148119657.1"
                     /translation="MKKNIQAGIFFVTMLLPVWHAAAETFTRCHPNETVWAMIQDEQLK
                     NIARLQETKRCQAVNDTYDQWRQNFQAMGDAENAIRSARDNQNWNAVKSTFDNIAPQIN
                     SLHALAEKKFIVIGRG"
                     /name="hypothetical protein"
     gene            3300..4751
                     /locus_tag="BWI89_RS30390"
     CDS             3300..4751
                     /locus_tag="BWI89_RS30390"
                     /inference="COORDINATES: protein motif:HMM:NF014581.4"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretory system conjugative DNA transfer
                     family protein"
                     /protein_id="WP_250645351.1"
                     /translation="MHWQKKNSSLLGAGNILALFGGDLNYLYQNAGLVAPASADGLTDN
                     VSQMLTEPDKQVKAAGIAQQLVYQTRVRAQSFIQGVAQNAGNEAQKEYREQSDKIVEDK
                     AHNFKGDSVEGYFGGFLARISQVYAPVLLFLIIVGIIGALTARRVRLDAFTASVKAVMA
                     AVVPAVALALMLIFMPFLPSWVLYTAALAGTFAIYSRSKQILGGLASRCGRFPTLASGL
                     RWMGGFVSGIDADRKQETGAASVNPASHHTHGSSRWGTAAEMRENNHLLPTEKQAGFTL
                     ARELSPPPGVDGKFCFTGHVVTVAPTGSGKGIGAVIPNLLTYQGSALVFDPKGENAEVT
                     GRRRREMGQSVHVIDPFGITSGIKESVNILDRLDVTSPDCVAESAVLAESLVVSEKGGD
                     SNHFDESARTLLQGLMLHVSGLPDESRRNLAELRRLITSDEENLLALLADMAASEDVAS
                     VSPPSGQHAHGDGRPGTRLSIVYRP"
                     /name="type IV secretory system conjugative DNA transfer
                     family protein"
     gene            4708..5177
                     /locus_tag="BWI89_RS30395"
                     /pseudo=""
     CDS             4708..5177
                     /locus_tag="BWI89_RS30395"
                     /inference="COORDINATES: protein motif:HMM:NF014581.4"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretory system conjugative DNA transfer
                     family protein"
                     /name="type IV secretory system conjugative DNA transfer
                     family protein"
     gene            5308..5457
                     /locus_tag="BWI89_RS30400"
     CDS             5308..5457
                     /locus_tag="BWI89_RS30400"
                     /inference="COORDINATES: protein motif:HMM:NF014581.4"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretory system conjugative DNA transfer
                     family protein"
                     /protein_id="WP_250645352.1"
                     /translation="MTPDEVMRLGPTRPIVILKGEYPYQLTRINYLTDPEYAGMADPNP
                     YYSA"
                     /name="type IV secretory system conjugative DNA transfer
                     family protein"
     gene            complement(5710..6003)
                     /locus_tag="BWI89_RS28260"
                     /old_locus_tag="BWI89_28235"
     CDS             complement(5710..6003)
                     /locus_tag="BWI89_RS28260"
                     /old_locus_tag="BWI89_28235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019454714.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /protein_id="WP_236919643.1"
                     /translation="MASGRLSWRTNASGHRELETSELIRVYGEIKKDGTAERHIVAQPD
                     DTVPSRVMMDELRALRQEVSDLKSMLLRLEHKPEKPPEVAAPWWRFWQKKST"
                     /name="entry exclusion protein 1"
ORIGIN
        1 cggggcttta tttttaatac tctgacctgc atggaacatc ctacattaga ctggaacatt
       61 atatatctaa tcgcgcccct ggctgctatt tctggtgcgt cagccatgcg tcatgcaaag
      121 cctgcaggtt gagccagaaa tctttatcgg tctggaactg ttcggccagc ttgtaaggct
      181 cctcagcact gaggcgacgg cggttactga taatatcatc gatatgatgc tcaggaattc
      241 ctgtagcctg cgccagttcc ccctgagaca tgttcagagg ttttaaaaat tcctctgcga
      301 gcatttcccc cgcagttgtc ggctccgcac acttcccggt atggaaagcc agaatttcag
      361 ctcgtccctg ctcataggtt atctcacccg aaataactct cgctttaatc gactcgtagc
      421 gggggattcc gctgggatct ataccttcca gtctcaggct tgcctcagcc ttcatgaagc
      481 cacgcctgcg ctgttcttca ctcatatcta cctcatatgt caatatcagg cgtacctcat
      541 atgtcatgaa atactgttaa ccagtacaat gctttcagcc cgaaaagacg cctgatcagt
      601 ctggccgggt caggtatgca gcatggttgg cgctgtgttg cataccgcta acgcccacgg
      661 ccaccacgtt cattctgctt atccctctcg aattttgctt taaacttctc cagaacctga
      721 tcacgcttgc tgagtttctc tttctctccg gactccagtt cttttgtctc ttcgccgatc
      781 gtttcattct gcagtgaagc ctgatgagac gctttttcca gctctgcacg ttcggctttg
      841 tcggctttat ctctccgggc atcaccacgc tgtttgagtt cttcgatagt ttccagcttc
      901 atatcagctt tctcctgttt gcgggactgt acgcgggtac ggtatgcggc catatcttcc
      961 gcgttcttct gagcattgag cgattttatc tgcccagcca ggatcggatt ttctttcgcg
     1021 gccagctggt cggccagccg ttctcccggc gtagacattt cgtaagcgcc agacttgcgc
     1081 atgtagcctc tgacaaagcc aagccgattt ttcagttgca ccagacgacg atcgagacca
     1141 tttttgatgg tctgccaggt actggcggcc tgttcatagg cgctgcgctt aaacattcct
     1201 atcaggccgc tgggctgttc tggtctttgt cgctcatgtg aggatatttt ttgtctctgg
     1261 cgttcaacct gtgccgcccc acgggcggca atccgtccgg ccttatcgtg aacgaaagtc
     1321 agcttatccc ggcgtaaacg ttgccattca agccggataa tttccggtcg ctttggcttg
     1381 ctggttacag tgttttcccg tcgcagaggc tgatttctgt cggttctctg gtgctccacg
     1441 tcacgagata cattgcccgg caataacatc tcacttcgtt ctccgaagcg aaccatatcg
     1501 agttcggaca ggttgcgcag gcgacccctt gcgctgggcg gcgggacggc tccagcgcgg
     1561 ccagtgttgg actgagcggt gcggactcct ctcctatctc gccctgtgtc tcgtgcaggg
     1621 actggagcaa tgcttccatg tcctgctctg ctgttgttgt catgggttgc cctccagttt
     1681 tcaatcagct gaattgcccg tgaaagcggc tggatttcag cattacgcaa tattatctgg
     1741 cgatgttcat tgcctcgttc ggtctctatg ccgcgctttt ccatctgcgc agctgcgtaa
     1801 ccgatatgaa tagtcggaac ccgatccagc tccgctgcct tggcggaatc cccctgagaa
     1861 atagctgatt cccgttgcgc ctcaagtgaa cgatggtcaa tacgctctga acggccagct
     1921 ttttccagat gacggttcgt catttctgac catgcagaac gccagtagtt gacttcgccg
     1981 ctcttaaaat catcaagttc acgggtctta tccttgaaac cttcctccga cagtcggcgg
     2041 gtactgcata aaacatgagc atgataatta cgctggtcac cctctttacc cggagcatgg
     2101 atagcggcat ccactgccat tccgtgacgc tcaaccagtg aagaacaaaa ctcacgaagc
     2161 agatcgagac gctgttttcc gtcaagctcg gcaggaaatg cgagttcaaa ttctctggca
     2221 acggttgaat tacgacggtt ttctttctgt tcaactgcat tccagagagt ctcccgatta
     2281 ctcgcccaac ctggtgagtt ttgagggaga aaaatctctg aatgctcgac gcctgattta
     2341 cgggtgtagt cgtgggtaat cccagttcgc tcatcaacaa ttcttgaacc tgtacgataa
     2401 gcaattgccg cagtggccga acggccagca ctacggctta ttgtcttaac gctaagatga
     2461 aaaattgcca atttagtatt cctgtttttc ctttgacctt gggtgcaggg ttttaaccct
     2521 gccgcacgca aactcgaaga gtttgcataa gtgcgccctt tgctttcgct tcgggttgaa
     2581 atatatcagc aatggagtta tcgttcaaat ttgaatcaaa gaggtgaata atggcaaaat
     2641 caagagcgga aaagttggaa gagttgcgtc agaaagaagc tcagataaag gcgcaaattc
     2701 agcaattaaa gcaaagagag cagacagaag aacgcaagaa ggatacccga cgaaaaatcc
     2761 taatcggtgg tgccgtactc gcaaaaataa agcgtgggga atggaattat catcagctgg
     2821 tgagtcttct ggacaatgag ctgaaaaatg acagagaccg ggcactattt gatgaaatgg
     2881 gtttaaaggc ggttgacgcc agaaaagaat cttttaaccc cggtaataag tgacgccaat
     2941 tacttattct cggatgatga atcagatcag gagatttagc atgaaaaaaa atatacaggc
     3001 cgggattttc ttcgtcacaa tgctattgcc agtatggcat gcagcggccg aaacattcac
     3061 ccgctgccat ccaaatgaga ctgtctgggc aatgatccag gatgagcagc taaaaaacat
     3121 cgccagacta caggaaacaa agcggtgtca ggccgttaat gacacttatg accagtggcg
     3181 ccaaaatttc caggcgatgg gagatgcaga aaacgccatc cgcagcgccc gcgataatca
     3241 gaactggaac gccgtaaaat ccacgttcga taacattgct ccccagatta atagcctgca
     3301 tgcactggca gaaaaaaaat tcatcgttat tgggcgcggg taacatcctg gcgcttttcg
     3361 gcggcgatct gaattacctg taccagaatg cagggctcgt tgccccggcc agcgctgacg
     3421 gactgacaga taacgtcagt caaatgctga ctgaaccgga taaacaggtc aaagctgcag
     3481 gtatcgcgca acagctggtt tatcagactc gggttcgggc acagagtttt atccaaggcg
     3541 tggcacagaa cgccggtaac gaagcccaga aagagtatcg tgagcaatca gataagattg
     3601 tcgaggataa agcccataat tttaaaggtg acagcgtgga aggatatttc ggcggctttc
     3661 ttgcccggat aagccaggta tatgctccag ttctgctgtt ccttatcatc gttggtatta
     3721 ttggtgcact taccgcacgg cgggtaaggc tggatgcttt cacggcatca gtgaaagcag
     3781 ttatggccgc agtggtacct gcagtagcac tggcgctgat gctgatattc atgcctttcc
     3841 taccatcatg ggtattgtac acggcagcgc tggccggaac attcgccatt tattcccgca
     3901 gtaaacaaat tcttggaggg ctggcctctc gctgtgggcg tttccccaca ctggcctccg
     3961 ggcttcgctg gatgggcggt tttgtgtctg gcatcgatgc tgacagaaag caggaaacgg
     4021 gcgcggcatc cgtcaacccg gcctcacatc acactcacgg ctcatcacgc tggggaaccg
     4081 ctgcagaaat gcgggaaaat aaccacctgt taccaacgga aaagcaagcc ggattcaccc
     4141 tggcacgaga actgtcccca ccgcccggag tggatggaaa attctgtttc accgggcacg
     4201 ttgtgactgt tgcccctacg ggcagcggaa aagggattgg cgcagtaatt cccaatcttc
     4261 tgacttatca aggttcagcg cttgtctttg atccaaaagg ggaaaacgcc gaggtgacag
     4321 gtcgccgccg tcgtgaaatg ggtcagagcg tccacgtaat tgacccattc ggcataacca
     4381 gcggcataaa agaatcagtg aacattctgg atcgtctcga tgtgaccagc ccggattgcg
     4441 tcgctgaatc tgcagttctg gccgaaagcc ttgtggtatc agagaaaggt ggtgacagta
     4501 atcattttga tgaatcagcc cggaccctgt tacagggcct gatgctgcat gtttccggat
     4561 taccggatga gtcccgacgt aatctcgcgg aactacgtcg actgatcacc agtgatgaag
     4621 aaaacctgtt agccctgctg gccgatatgg ccgcaagtga agacgttgct tcggtatccc
     4681 cgccgagcgg ccaacacgct catggggatg gcagaccggg aacgaggctc agtattgtct
     4741 accgcccgta aaaacacagc atttctggac gacccgcgta tagcagctgc gctgtcacac
     4801 tcagacttca acctgtcagc catcaaagct gaaccgatga cagtttatct cgtgctacca
     4861 gctaatcgca ttgcagcaaa tacccgattt ataaggctgt ttatcggttc tgtgatctcc
     4921 gctgtaacag aatcgaaggc gaagccagct cataatgtcg cattcatcct cgatgagttc
     4981 aacgtgctgg ggtatatgaa atcaaggatg ccgtaagcct gttacgcgga tacgggctgt
     5041 ctttctgggt attcctgcag gatctgtcac agctgaaaag tgcttaccct aaatggcaga
     5101 cgtttctggc caactcagcg aagacgttct acggcacaga cgactatgac actgcaaaaa
     5161 catcagcgac accctaggta aatcgacggt tgaatttgaa acccagaatt caggccgcaa
     5221 ctctggcagc ggtgtttccg ggggtggcgg ctccatgaat cgggtcgttc gtctggatca
     5281 agtcagcagt ttgctgggag ggaattactg acacctgacg aagtcatgag gcttggacca
     5341 acccgaccaa ttgtgattct gaaaggggaa tacccttatc agctcacccg tattaactat
     5401 ctgacagacc cagaatacgc cggtatggca gatcctaacc cctactacag cgcatgatat
     5461 ttggaatcgt tgtcggcgta ctgttagctc tgatgtttgg ccgggtcttg ctcccggcct
     5521 taaccgccgt cgcctttgtg ataggcatac cgatatactt ctctttccgc tttatctgtg
     5581 cctttatctg ggctctggtg acgcaaaaca gaagacgtag tgctatgaca atagagacac
     5641 aaaagaccac aaagcctgaa actctaccgg ataacgtaat caactttagc cgcgaaaaag
     5701 agaaaagagt taagtagatt ttttctgcca gaaacgccac cacggagccg ctacttcagg
     5761 cggcttttcc ggtttatgct caagccttaa cagcatagat ttaaggtcag aaacttcctg
     5821 ccgtaaagca cgcaattcat ccatcatgac cctactgggc acggtgtcat caggctgtgc
     5881 cacgatgtgc cgttcagctg tgccatcttt tttaatctcg ccataaacac ggatcagctc
     5941 tgaggtctca agttcgcgat ggccgctagc attagttcgc catgacaagc ggccagacgc
     6001 catatcccga taaagggttc tgcgactttt cc
//
