LOCUS       NZ_CP129277             4148 bp    DNA     circular CON 17-JUL-2023
DEFINITION  Escherichia coli strain G12 plasmid pG12e, complete sequence.
ACCESSION   NZ_CP129277
VERSION     NZ_CP129277.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36083486
            Assembly: GCF_030436695.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4148)
  AUTHORS   Cui,J. and Yuan,L.
  TITLE     Complete sequence of avian Escherichia coli carrying blaCTX-M
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4148)
  AUTHORS   Cui,J. and Yuan,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-JUN-2023) College of Veterinary Medicine, Henan
            Agricultural University, LongZiHu, Zhengzhou, Henan 450046, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 432.0x
            Sequencing Technology             :: Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/14/2023 16:28:32
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,285
            CDSs (total)                      :: 5,162
            Genes (coding)                    :: 4,950
            CDSs (with protein)               :: 4,950
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 212
            CDSs (without protein)            :: 212
            Pseudo Genes (ambiguous residues) :: 0 of 212
            Pseudo Genes (frameshifted)       :: 83 of 212
            Pseudo Genes (incomplete)         :: 138 of 212
            Pseudo Genes (internal stop)      :: 45 of 212
            Pseudo Genes (multiple problems)  :: 50 of 212
            Pseudo Genes (short protein)      :: 4 of 212
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP129277.1.
            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..4148
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="G12"
                     /isolation_source="liver"
                     /host="Chicken"
                     /db_xref="taxon:562"
                     /plasmid="pG12e"
                     /geo_loc_name="China:Henan Province"
                     /collection_date="2008-12"
     gene            1..204
                     /locus_tag="QYN12_RS26390"
                     /old_locus_tag="QYN12_26390"
     CDS             1..204
                     /locus_tag="QYN12_RS26390"
                     /old_locus_tag="QYN12_26390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000427298.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="retron Se72 family effector protein"
                     /protein_id="WP_000427298.1"
                     /translation="MENGFVNFYDHVKGYGFIRRERGRDVFFRYDDFLFLGHDVDICKG
                     ILVRFKLEKTDKGFKAVAIQKV"
                     /name="retron Se72 family effector protein"
     gene            complement(1042..1236)
                     /locus_tag="QYN12_RS26395"
                     /old_locus_tag="QYN12_26395"
     CDS             complement(1042..1236)
                     /locus_tag="QYN12_RS26395"
                     /old_locus_tag="QYN12_26395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041640.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1520..1843
                     /gene="mobA"
                     /locus_tag="QYN12_RS26400"
                     /old_locus_tag="QYN12_26400"
     CDS             1520..1843
                     /gene="mobA"
                     /locus_tag="QYN12_RS26400"
                     /old_locus_tag="QYN12_26400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            2093..2431
                     /locus_tag="QYN12_RS26405"
                     /old_locus_tag="QYN12_26405"
     CDS             2093..2431
                     /locus_tag="QYN12_RS26405"
                     /old_locus_tag="QYN12_26405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001027011.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005761321.1"
                     /translation="MNISIKNNDLKTVARFDGKTLRDAFSRKIATFDGKVLRDASLKKV
                     ATFDGKVLRDASLKKVATFDGKVLRDASLKKVATFDGQNLRDASSKIILSADAEVGIVV
                     MAFVAELI"
                     /name="hypothetical protein"
     gene            3005..4144
                     /locus_tag="QYN12_RS26410"
                     /old_locus_tag="QYN12_26410"
     CDS             3005..4144
                     /locus_tag="QYN12_RS26410"
                     /old_locus_tag="QYN12_26410"
                     /EC_number="2.7.7.49"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000900598.1"
                     /GO_function="GO:0003964 - RNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="reverse transcriptase family protein"
                     /protein_id="WP_005761319.1"
                     /translation="MNKPRFNGTPVASLDSLSAMLGIERKRLDWIVKSVSMSYKQFKVE
                     TGKNKKERQIFEPKRSLKGIQKKINKEIFEKIDYPHYLHGALSGRDYISNAAVHTRKRT
                     VICLDITNFYPSISKKDVCSIFKNLMRFSPDVSLCLTELVTLNNKVPQGGCCSSYIANL
                     LFFNSEYNLYNRLKSMGLSYSRLLDDITISSDKDLSSEEKTKVIKLVHGMVNQYRLSIN
                     ESKTTIEHSKDSSSKLSVTGLWVKHGVPKLTKENRRYIRYLVYICKKQGAYERHTKEYH
                     DLWNRCSGKVAQMSRLGHVQAVELRAILSEIMPVYDDYKISKLKLMAKHYLNKFTPPLT
                     DDQIRKIDRMLYDFDIVGRTNKNLAKLYRRKLVALLPDR"
                     /name="reverse transcriptase family protein"
     Typing          1272..1511
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.17"
                     /coverage="100.0"
                     /evalue="1.65e-119"
     Typing          complement(486..1007)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.476"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          1521..1840
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.09e-62"
ORIGIN
        1 atggaaaatg gatttgttaa tttttatgac catgttaaag ggtatggctt tataaggcgt
       61 gagcgtggac gtgatgtttt ctttcggtat gatgattttt tgtttttagg gcatgatgtc
      121 gatatatgta aaggtatttt agttaggttt aaattagaaa aaacagataa agggtttaaa
      181 gctgtagcga ttcaaaaggt ataacatcgt ggatgtgtca gcttgttttt atgatatgag
      241 aacttgagat cctttctatt tcgtcgtaat ctcttgctgt gtaaacgaaa aaaccgcctt
      301 gcagggcggt ttttcgaagg ttctcagagc taccaactct ttgagccgag gtaactggct
      361 tggaggagcg cagtcaccaa aacttgttct ttcagtttag ccttaacagg cgcatgactt
      421 caaggctaac tcctctaatt cggttaccag tggctgctgc cagtggcgat aagtcgtgtc
      481 ttctcggttt ggattcaagt cgatagttac cggataaggc gcagcggtcg gactgaacgg
      541 ggggttcgtg catacagtcc agcttggagc gaacgaccta caccgggccg agataccaac
      601 agcgtgagct atgagaaagc gccacgtttc ccgaagggag aaaggcggac aggtatccgg
      661 taagcggcag ggtcggaaca ggagagcgca cgagggagct tccaggggga aacgcctggt
      721 atctttatag tcctgtcggg tttcgccacc tctgacttga gcgtcggttt ttgtgatgct
      781 cgtcaggggg gcggagccta tggaaaaacg ccatcggcgc ggcctttgtc cctggcttcg
      841 gctttttgct cacatgttct ttccggcgtt atcccctgat tctgtggata accgtattac
      901 cgcctttgag tgagctgaca ccgctcgccg cagtcgaacg accgagcgta gcgagtcagt
      961 gagcgaggaa gcggaagagc gccttatgtg acattttctc cttacgctcc tctatgccgt
     1021 tctgcatcct gtccggatgc gttatatccc ggtgcgattt tccgcttcaa agcgtgtctg
     1081 tatgctgttc tgaagttctt ccgcgagttc gtgcagcttc tcacacatgg cggcctgttc
     1141 gtcagcatca agtgcgtcca gtttttcgag cagcgtcagg ctctggcttt ttatgaatcc
     1201 tgccatgttg agtacggttt gctgctgctt gttcatcttt ctgttttctc cgttctttct
     1261 gtcatctgcg ttgtgtgatt atatcgcgta ccacttttcg actgttttac cgtcggtatt
     1321 ctgctgtctg actctttgac gggcatttct gtcagacaac actgtcactg ccaaaaaact
     1381 gccgtgcctt tgtcggtaat tcgagcttgc tgacaggaca ggatgtgcaa ttgttatacc
     1441 gcgcatacat gcacgctatt acaattaccc tggtcagggc tttgccccga cacccatgtc
     1501 agatacggag ccatgtttta tgacaaaacg aagtggaagt aatacgcgca ggcgggctat
     1561 cagtcgccct gttcgtctga cggcagaaga agaccaggaa atcagaaaaa gggctgctga
     1621 atgcggcaag accgtttccg gttttttacg ggcggcagct ctcggtaaga aagttaactc
     1681 actgactgat gatcgggtac tgaaagaagt tatgagactg ggggcgttac agaaaaaact
     1741 ctttatcgac ggcaagcgtg tcggggacag ggagtatgcg gaggtgctga tcgctattac
     1801 ggagtatcac cgtgccctgt tatccaggct tatggcagat tagcttccag gggagaaaac
     1861 tgtcgaaaac agacggtatg aacactgtaa gctcccaaag tgatcaccac tcgctttcat
     1921 gcatagctat gcagcgagct gaaaacgatc ctgacgcatt tccccggttt tcttagggta
     1981 aaacatctct ttttgcagtg tctgtgtcag aatcgcgctg agcgcgattc tgtggtgcgt
     2041 acaattaagg gattatggta aatacaattg gttaaattac tattggtgag aaatgaatat
     2101 ttcaataaaa aacaatgact taaaaaccgt tgctcggttt gacggtaaaa ccttaagaga
     2161 tgccttttcg agaaaaatag cgacttttga tggcaaggtt ttaagggatg cctctttaaa
     2221 aaaagtggcg acttttgatg gcaaggtttt aagggatgcc tctttaaaaa aagtggcgac
     2281 ttttgatggc aaggttttaa gggatgcctc tttaaaaaaa gtagcaacct ttgacggtca
     2341 gaatttaaga gatgctagtt caaaaattat cctgagtgcc gatgctgagg ttgggattgt
     2401 tgttatggcc tttgtagctg agttgatttg aatctcatgc tgcatacctt ttagcctatc
     2461 gctggcagga taaggcgctt tcttgttggt gacagaaaga taaaaaactt tataataatc
     2521 agcgaagcgg gcgaaccacg cctggctctc gctctttaac aaatggttac gtgtatgttg
     2581 cgcaaggaaa ccgatgcctt gtttttaagg cgatctcgca tgagatcatg accggcctgg
     2641 ccgctaatta atggtgagaa cgcccctgag cgtgtatcag cactaaaaga atagcgacga
     2701 ttgtctggca atgtgagtta aaagtcccaa agagccaata gagtttttcc ttgctttcct
     2761 actggtctgg caaaatttca taaccaatag gagttgcatc atgtttatta tcaacatcaa
     2821 cattaacgta accaagagct cttcatcttg ttctggagac ggtcagatga agaaaaaaag
     2881 agaggttggc tctctggagg cactgaaaaa aacacagttt ttgttttcta tgtgcttgat
     2941 tatgtttaaa gtaatagatt acgtatcgaa actttttaac taatcgactt ttaactcaaa
     3001 catcatgaat aaacccaggt ttaatggaac tcctgttgca tctttggatt ctttatctgc
     3061 gatgttaggc atagaaagaa aaagattgga ctggatagtc aagtctgtat cgatgtcgta
     3121 caagcagttt aaggttgaaa cagggaagaa taaaaaagaa aggcaaattt ttgaacccaa
     3181 gagatctttg aaaggaattc aaaaaaaaat aaataaagag atttttgaga aaattgatta
     3241 ccctcattat ttgcatgggg cgttaagtgg tcgcgattat atatctaatg ccgctgttca
     3301 tactaggaaa agaacagtta tatgtcttga tatcaccaat ttttatccca gcattagtaa
     3361 aaaagatgtt tgttctattt ttaaaaattt aatgcgtttt tctcctgatg tttctttatg
     3421 cttaacggaa cttgtgacgt tgaataataa ggtccctcag ggtgggtgct gttctagtta
     3481 tattgcaaat cttttatttt ttaatagtga gtataatctc tataatagat tgaagtctat
     3541 gggactttca tattcaaggc ttttagatga tattactata tcctctgata aggatctttc
     3601 atcagaggaa aaaacaaaag taataaaact cgttcacgga atggtgaatc agtacagact
     3661 ttcaataaat gaaagtaaga caacgataga gcactcaaaa gattcgtctt ctaaacttag
     3721 tgtcactggg ttgtgggtaa agcatggtgt tcctaagtta acaaaagaaa atagacgtta
     3781 tatcaggtac ttagtttata tatgtaaaaa acaaggtgct tatgaacgtc atacgaaaga
     3841 gtaccatgat ttatggaata gatgctctgg caaggttgct caaatgtcga ggcttgggca
     3901 tgtccaggcg gttgaattga gggcgattct ttctgagata atgccagttt atgatgatta
     3961 caagatatct aaattaaagt tgatggctaa gcactatcta aataagttta cgccgccttt
     4021 aactgatgat cagattagga aaatagatag gatgctctat gattttgata tagtagggcg
     4081 gactaataag aatcttgcaa aactatatag acgtaagctc gtggcattac ttccagatag
     4141 gtgattat
//
