LOCUS       NZ_CP103336             5238 bp    DNA     circular CON 10-MAR-2024
DEFINITION  Escherichia coli strain ZY22049 plasmid p7, complete sequence.
ACCESSION   NZ_CP103336
VERSION     NZ_CP103336.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30450095
            Assembly: GCF_028473865.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5238)
  AUTHORS   Li,F.
  TITLE     Escherichia coli ZY22049
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5238)
  AUTHORS   Li,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-AUG-2022) Yunnan Tropical and Subtropical Animal Virus
            Disease Laboratory, Yunnan Animal Science and Veterinary Institute,
            Jindian, Panlong District, Kunming, Yunnan 650224, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. JUN-2022
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 4790645.0x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/09/2024 04:07:51
            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)                     :: 5,278
            CDSs (total)                      :: 5,160
            Genes (coding)                    :: 4,871
            CDSs (with protein)               :: 4,871
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 289
            CDSs (without protein)            :: 289
            Pseudo Genes (ambiguous residues) :: 0 of 289
            Pseudo Genes (frameshifted)       :: 88 of 289
            Pseudo Genes (incomplete)         :: 194 of 289
            Pseudo Genes (internal stop)      :: 47 of 289
            Pseudo Genes (multiple problems)  :: 39 of 289
            Pseudo Genes (short protein)      :: 5 of 289
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103336.1.
            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..5238
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ZY22049"
                     /isolation_source="feces"
                     /db_xref="taxon:562"
                     /plasmid="p7"
                     /geo_loc_name="China:Yunnan province"
                     /lat_lon="24.79 N 103.15 E"
                     /collection_date="2022-04-15"
                     /collected_by="Fuxiang Li"
     gene            complement(join(4950..5238,1..374))
                     /locus_tag="NX000_RS26260"
                     /old_locus_tag="NX000_26195"
     CDS             complement(join(4950..5238,1..374))
                     /locus_tag="NX000_RS26260"
                     /old_locus_tag="NX000_26195"
                     /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_016946051.1"
                     /translation="MPVSLPFCSRIALLMLCELDCSSALIDVSSLANSRFTLCSVSCAC
                     CFDFSSKPFAKFKISLINHSFQPDISAAVRIGNADAAFRFPRHGQAIAFQLRHHVLPAA
                     DHALLHQVHQPGGNFLCRLLFVAGQIAGLRQRAAISRVVRVAQPQPVVGQGLPGVDAGA
                     VGAVKVGLQAFSALQFDVRDDKIQLKPSFVAVLHPQAGVLVAVKASQQRVLPFIHQA"
                     /name="hypothetical protein"
     gene            373..675
                     /locus_tag="NX000_RS26265"
                     /old_locus_tag="NX000_26200"
     CDS             373..675
                     /locus_tag="NX000_RS26265"
                     /old_locus_tag="NX000_26200"
                     /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_272592202.1"
                     /translation="MLRASVSTAMAWIFLCFALLIGILSGIIWFQGTIITSRLSEMDSY
                     SQQLESLKAKSGAGVAIYSDDKHRNTYMVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="hypothetical protein"
     gene            745..969
                     /locus_tag="NX000_RS26270"
                     /old_locus_tag="NX000_26205"
     CDS             745..969
                     /locus_tag="NX000_RS26270"
                     /old_locus_tag="NX000_26205"
                     /inference="COORDINATES: protein motif:HMM:NF016769.4"
                     /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_226939304.1"
                     /translation="MEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFEATSQALTHSD
                     RVCQHLSSQVESLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1131..1463
                     /locus_tag="NX000_RS26275"
                     /old_locus_tag="NX000_26210"
     CDS             1131..1463
                     /locus_tag="NX000_RS26275"
                     /old_locus_tag="NX000_26210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_000017531.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKIRMATGNQGKSGSVRVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKTLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            1465..1749
                     /gene="nadS"
                     /locus_tag="NX000_RS26280"
                     /old_locus_tag="NX000_26215"
     CDS             1465..1749
                     /gene="nadS"
                     /locus_tag="NX000_RS26280"
                     /old_locus_tag="NX000_26215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            1942..2847
                     /locus_tag="NX000_RS26285"
                     /old_locus_tag="NX000_26220"
     CDS             1942..2847
                     /locus_tag="NX000_RS26285"
                     /old_locus_tag="NX000_26220"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019725130.1"
                     /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_113410844.1"
                     /translation="MNNAVLELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPENGHAHLLYALETSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHGHWKIAVWQPELYTLDWLADFLDLSAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERASAYNLQFAVPLD
                     ENEVSGIAKSIAKWTSSKFSEESFSDFVKKTHTKKIQSKRGVLSGKSRRIGSLEDTRPW
                     DDLGISRRKYFYMKKNGEEK"
                     /name="replication initiation protein"
     gene            2844..3716
                     /locus_tag="NX000_RS26290"
                     /old_locus_tag="NX000_26225"
     CDS             2844..3716
                     /locus_tag="NX000_RS26290"
                     /old_locus_tag="NX000_26225"
                     /inference="COORDINATES: protein motif:HMM:NF033610.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF4231 domain-containing protein"
                     /protein_id="WP_112915697.1"
                     /translation="MKYPSLYDVTNKRSASYQKRYFFFLRLEYCILILNAVNAFLTYEK
                     KYIVALVLFSMLMLMMVLKIKKTSEQEWYKYRAITESIKTVSWKFSMRAEPFNDEDEVK
                     NINSLSEYLEDIVGGSEFISKTIDPKSVDESTVTDEMKGLRTLSFEQRRDFYVDGRIND
                     QRDWYVSKAQENKDAGKKWNICMFVIYALAFLCSLYNAYYSVPGSIIPISILTTIASSL
                     VGWIQVKRYSELSASYILTAHEIGVIKEQASYVSSESDFSSFIRDAETAFSREHTQWIA
                     RRVANRKPK"
                     /name="DUF4231 domain-containing protein"
     gene            complement(3734..4138)
                     /locus_tag="NX000_RS26295"
                     /old_locus_tag="NX000_26230"
     CDS             complement(3734..4138)
                     /locus_tag="NX000_RS26295"
                     /old_locus_tag="NX000_26230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019821692.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /protein_id="WP_074468595.1"
                     /translation="MAREHKVFISHAWAYHDELESLRRLIDARPYFNAEYSEVSRNEPI
                     NSTNAPYIKSVLKRKILDSNILIGLAGIYASHSSWMEWELDTALANGIPVIGVVPRGAQ
                     RISTMVSTRAVEVVRWNTESIIAAIRRHAR"
                     /name="TIR domain-containing protein"
     gene            4424..4750
                     /locus_tag="NX000_RS26300"
                     /old_locus_tag="NX000_26235"
     CDS             4424..4750
                     /locus_tag="NX000_RS26300"
                     /old_locus_tag="NX000_26235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /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_003030983.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHTSRK
                     RRVPDVAPELLRQVSGIGNNLNQIARRLNQTDSLTPSERASLLIVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(4558..4750)
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.026"
                     /coverage="100.0"
                     /evalue="4.02e-35"
     Typing          4..1067
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.873"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          4741..5237
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.193"
                     /coverage="99.0"
                     /evalue="3.9e-101"
ORIGIN
        1 aacagcaggc ggcagagaaa attaccgccg ggctgatgaa cctgatgcag cagggcgtga
       61 tccgcagccg gcaggacgtg gtgacgcagc tggaaagcta tggcctgacc gtggcgcggg
      121 aaacgaaaag cagcatcagc attgccgatc cggacggcgg ccgaaatatc cggctgaaag
      181 gaatgattta tgagcgagat tttaaatttg gcgaagggct tcgaggagaa atcgaagcag
      241 caggcgcagg atacagagca gagcgtgaag cgcgagttcg cgaggctgga gacgtctatc
      301 agcgcggaac tgcaatcaag ctcgcagagc atcagcaacg ctatccgcga gcagaacggc
      361 agactgacgg gcatgctcag agcctctgtc tcaacggcga tggcgtggat attcctctgc
      421 ttcgccctgc tgatcggcat cctgagcggg ataatctggt ttcagggcac gatcatcacc
      481 tcgcgcctga gcgagatgga cagctacagc caacagctgg agagcctgaa agcgaaaagc
      541 ggcgcgggcg tggcgatcta cagcgacgac aagcaccgga acacctacat ggtggtgctg
      601 ccgaagcagg cgcacggcgt ggaaacctat acatcgacga ccgacaacac cgtagtgaaa
      661 tacacggcga aataaccccg tcagagcgcc ctgaaacgac acagcgcgtt tttaacaccg
      721 aggatgacca aaacgatgac cgagatggaa aaacagcttc tgagcgcctt agagagctta
      781 cagacaagct acgagcaaca gcagcaggcg tggcaggaca gctacagcag cttgcagcac
      841 atgttcgagg ctacttcaca ggcgctgacg cacagcgacc gggtgtgtca gcacttgagc
      901 agtcaggtag agagcttgcg cgcgcaggtc gagagcttga gcaggaacgt cagccgcttg
      961 atgcgttgat caggcagcac gaccgcgcct acgccgagaa gctgcgtgag cagcagccag
     1021 agccggagcc gcagaaaaaa acgactcgtt actatggccc ctcgatgtga tcgcttttcc
     1081 gaaatcagaa ttaagtgtac tatgtactcc gttaaaaaca ggagacagcc gtgagtcacg
     1141 cgattgagtt tatcgagacc ccgatgttta cccgtcagat aaaacagatc gccacggatg
     1201 aagaactcag ggagctgcaa aagacgctga ttgagtcgcc ggacaaaggc gatctcattc
     1261 agaaaaccgg cgggctgcgc aaaatcagga tggcgacggg caaccaggga aaaagcggca
     1321 gcgtgagggt gatttacttt ctggccaccg ccgaggtgat ctatctggtg atggcctacc
     1381 cgaaaagcac caaagacagc ctgacggacg cggaaaaagc cgcgctgaag acgctgaccc
     1441 aacaactgaa agacgaggtg tgacatgagt ttttttgacg agctgaaagc atctctggaa
     1501 gaagccgttg aaatcaaaaa cggcgtcaga gagcctgccc gcgtcacccg ttacgagctg
     1561 gcagacgtga aagccatcag ggcacagctg aacgtatctc agagcgagat ggcaaaagtg
     1621 ctgggaacca gcctcgacac catcaagagc tgggaaaccg gacgccgtaa cccgaccgga
     1681 ctggcggcga aggtactggc aaccatccag gcgaacccga aattcttcca ggaactggcg
     1741 gcgcactaag ccgttgtgac agaaggattc gacaggcgag gccgttcgcg tgtaatttaa
     1801 cggcaacaga aaaaacaaag ccccggaaat catgctcaat cttggcggat gcacatgata
     1861 accagggcca ggtcgaaacc ttgaaaggat attagcacat gaaacgtgcc agacaacagc
     1921 ccgccataag cgcagggcga attgaataac gcagtactcg aacttttcaa cgaccgctta
     1981 ccgcacaagc cgtacttctc ggatgattta cactttggtg tacgcattgc agggaaagaa
     2041 cgcgccattc tggcgaaata catccagttc aatcagcctc acgccatgtt ctggctggga
     2101 ttcgacgtcg atcgcgccgg tgccgccatc gactggagcg atcgcaacgc gcccgcgccc
     2161 acgctgacca tcaccaaccc ggaaaacgga cacgcgcacc tgctgtacgc gctggaaacc
     2221 tcgatacgca ccgcacctga cgggaaaatg aagccgctgc gctacgctgc cgccgtggag
     2281 aacgcgctgc gtaaaaaatt agaggctgac gcggggtatt cggggttaat ctgcaaaaat
     2341 ccgaaccacg gtcactggaa aattgccgtg tggcagccgg aactctacac gctggactgg
     2401 ctggccgact ttctcgacct gagtgcggcg aacgacaagg aaattgtcgc cgactacggc
     2461 ttaggccgta actgcacgtt gttcgacaaa acccgcaagt gggcataccg cgccatccgt
     2521 cagggctggc ctgagtatga gcagtggctg caagcctgct atgagcgtgc cagcgcctat
     2581 aatctgcaat tcgcagtacc gctggatgaa aatgaggtta gtggaatagc taaaagtatt
     2641 gctaagtgga cttcatcaaa atttagtgag gaatcattca gcgattttgt taaaaagaca
     2701 catacaaaaa aaattcaatc aaagagaggt gttttatcag gaaaatcaag acgaataggt
     2761 agcctagagg atactcgtcc gtgggatgat ttgggcataa gtagaaggaa gtatttttat
     2821 atgaaaaaga atggtgaaga aaaatgaaat acccaagtct ttatgatgta acaaataaaa
     2881 gatctgcttc atatcagaaa agatatttct tctttttaag gcttgaatat tgcattttga
     2941 tacttaatgc ggtcaatgct ttcttaactt atgaaaaaaa atacatagtc gcattagtac
     3001 tgttctccat gcttatgtta atgatggttt taaaaatcaa aaaaacatca gaacaagagt
     3061 ggtacaaata cagggcgatt actgaatcga taaaaactgt ctcatggaag ttttccatga
     3121 gagctgaacc atttaatgat gaagatgagg ttaaaaatat aaactcatta tcagagtatc
     3181 tggaggacat tgttggtggt agtgagttca tatctaaaac tattgatcct aagtcagtgg
     3241 atgaaagcac ggtgactgat gagatgaaag ggcttcgaac cctatcattt gaacaacgca
     3301 gagactttta tgtagatgga aggattaatg atcaaagaga ttggtatgta agtaaggctc
     3361 aagaaaacaa agatgcaggg aaaaaatgga acatttgtat gttcgttatc tatgcattag
     3421 cgttcttatg ttcactttat aatgcatatt attcagttcc aggtagcata attccaataa
     3481 gcattttgac aacaatagca tcatcattag taggttggat tcaagttaaa aggtatagcg
     3541 aactgtccgc ttcgtatatt cttaccgcgc atgaaatagg ggtaataaaa gaacaggcgt
     3601 catatgtttc aagcgagagt gatttctcct catttattag agatgcggaa actgcatttt
     3661 cgagagagca tacccaatgg attgctagac gagtggccaa cagaaaaccg aagtaagggg
     3721 caccgcccct tttttatcgc gcatgacggc ggattgcagc aataatactt tcagtgttcc
     3781 atctaacaac ttctactgct cttgttgaaa ccatggtaga tatccgctgc gcacctcttg
     3841 gaacaacacc tataacaggt attccgttag ctagcgcagt atctaactcc cactccatcc
     3901 aactactatg agatgcatag atgcctgcta aaccaatcaa gatattagaa tctagtatct
     3961 ttcttttgag aacggatttt atgtacggtg cgttggttga atttatgggt tcatttctgc
     4021 tgacttcgga atactcagca ttaaagtagg gtctagcgtc aatcaatctt cttaatgatt
     4081 ccagttcatc gtgatacgcc catgcatgac taataaaaac cttatgttct cttgccactg
     4141 attgctcctt ttactcaatc ccctatgaac gcgcattata cctctgcgcc gatccgtttt
     4201 gcactcgaac ctatatcaga taacagcctc tcttagaggg actgtgtttt tgcagccagc
     4261 acagaatctg gcatacttta cattacttta agccagtaca cacagcgtcc cctctatgag
     4321 gttccgcctg tgactggttc agggggctcg ccgccccccg aaaccccctg catccactgc
     4381 gaaaaattct cacggtggtg cgaatttttt ctcagcggag cctatggaaa agcgaacgaa
     4441 agagatcaaa atccggctca ccgaaaccga gcatcagcga ttgcttgatc gctgcgaccg
     4501 gactcacctt gcggagtggc tgcgtcagct tggtctgggt gaacacactt cacgcaagcg
     4561 ccgtgtgccc gatgtggcgc ccgaactgct gcgacaggtc agcgggatcg gtaacaacct
     4621 gaaccagatt gcccgccgcc tgaaccagac tgattccctg acgccttctg aacgtgcctc
     4681 gctgctcatc gtactgacta gcctcgaccg tcagcttggc gacctgctgg agcagaaccg
     4741 tgatcgttaa aattcattcg cggggtgcgg gttcgggcag cgggccggtg gattacctgc
     4801 tgggaaaaga ccggcagcgc gaacaggcca gcgttctgcg tggcaatcct gagcacgtac
     4861 gcgagctgat cgatggctgc gattttgccc gcgcttacac ctccggtgtg ctgtcatttc
     4921 aggagccgga cattgcagac gctgagaaat cacgcctgat ggatgaatgg gagcacacgc
     4981 tgctgactgg ccttgaccgc gaccagtacg cctgcctgtg ggtggagcac cgcgacaaag
     5041 gacggcttga gctgaatttt gtcatcccga acatcgaatt gcagagcgga aaacgcctgc
     5101 aaccctactt tgaccgcgcc gaccgccccc gcgtcaacgc ctggcagacc ctgaccaacg
     5161 accggctggg gctgcgcgac ccgaacgacc cgacttatcg ccgcccgctg acgcaggcca
     5221 gcgatctgcc ccgcgaca
//
