LOCUS       NZ_CP104515             2089 bp    DNA     circular CON 06-OCT-2023
DEFINITION  Escherichia coli strain E2 plasmid p6, complete sequence.
ACCESSION   NZ_CP104515
VERSION     NZ_CP104515.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30789305
            Assembly: GCF_025369675.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2089)
  AUTHORS   Feng,A., Leigh,S.A., Akter,S., Wang,H., Pharr,T.G., Evans,J.,
            Branton,S.L., Landinez,M.P., Pace,L. and Wan,X.-F.
  TITLE     Genomic Diversity, Pathogenicity and Antimicrobial Resistance of
            Escherichia coli Isolated from Poultry in the Southern United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2089)
  AUTHORS   Leigh,S.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-SEP-2022) Bond Life Science Center, University of
            Missouri, University of Missouri, Columbia, MO 65201-8522, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.9b
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100%x
            Sequencing Technology             :: Oxford Nanopore; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/06/2023 04:07:46
            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)                     :: 5,557
            CDSs (total)                      :: 5,428
            Genes (coding)                    :: 5,107
            CDSs (with protein)               :: 5,107
            Genes (RNA)                       :: 129
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 321
            CDSs (without protein)            :: 321
            Pseudo Genes (ambiguous residues) :: 0 of 321
            Pseudo Genes (frameshifted)       :: 87 of 321
            Pseudo Genes (incomplete)         :: 239 of 321
            Pseudo Genes (internal stop)      :: 48 of 321
            Pseudo Genes (multiple problems)  :: 47 of 321
            Pseudo Genes (short protein)      :: 4 of 321
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104515.1.
            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..2089
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="E2"
                     /isolation_source="Backyard chicken"
                     /host="Poultry"
                     /db_xref="taxon:562"
                     /plasmid="p6"
                     /geo_loc_name="USA"
                     /collection_date="2017-05-25"
                     /collected_by="USDA"
     gene            complement(join(1984..2089,1..161))
                     /locus_tag="N5O74_RS27625"
                     /old_locus_tag="N5O74_27625"
     CDS             complement(join(1984..2089,1..161))
                     /locus_tag="N5O74_RS27625"
                     /old_locus_tag="N5O74_27625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     gene            complement(165..1130)
                     /locus_tag="N5O74_RS27630"
                     /old_locus_tag="N5O74_27630"
     CDS             complement(165..1130)
                     /locus_tag="N5O74_RS27630"
                     /old_locus_tag="N5O74_27630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     Typing          complement(506..737)
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 tcctcaaaac cttcgtgcgg atgaaaacca aatgtgccaa aacttaatcc atcaataagc
       61 aaaataaggt ttttaaacct gtcaggaatc accgcttcac ttcttaaaaa aaataaacca
      121 atagtcttat ttccattcag gtattcaata ttaatattca tacgttaatc cgatttatcc
      181 ttctcagggg cacgtttgta acgccgttta cctgaatccc agacaaacgc cgtccgcttc
      241 ccgtcatcag tgccatcccc tacatcgtcg gcaatgacaa gatcctcatt ggtttctcga
      301 tccaactgga ggacgttttt tagcgcccca ccggtcgaga taaaacggcg cttgtgaagc
      361 tgccgcgtca gctcaagaaa ccactcagga tcgtttgcca tatcttccgg tttaacggag
      421 tatttcagcg tttcagcaac cgcgctttgc agttgctcgg caacgttggc cacaacctca
      481 cctgtcttag tttttactgc ccgaatatcg atattcggct catagttcac ccgcaagcaa
      541 tcgcgccaga gttctaccca acgttcgtgc ttaacgtagt tcttcccttt aaaccaagaa
      601 ggttgcacca tcagcagaca gtgaaaatgc ggatgtgcgc tgccatcctt acctcgcgtc
      661 acctccgtag ccctgatcca cccctgaaca ggtgatagct cctttcgctt ttccattcgc
      721 ttaaacgccg cattcattgc tgtaaggact gttccaagtt cacctatctc gcagttcctg
      781 acagttaacg tcagaaacaa ccatcgggaa gacgggtaat ccacaacgat tttcggtaga
      841 gcctgataaa aacgggcttg ccacatgagg gttcttctcc actggcagac agggcaatga
      901 cggacacggc aaaattgcgc actacgaagc cgtaggcgcg tttctccggt ttccatgatg
      961 gtagaccaac caaaacgtaa caaaccgcta caggaggcca tacggagtgc atagcgctcg
     1021 aattcagcag cagtctggta gatacccccg acagaatcgg taagcgtgcg ctgggtatcc
     1081 caaactgcat cacgggggct gtagtccgaa aggaatttat cttctgacat taagcctgct
     1141 ccgatctggg caggctgtga tttgatgtgg tatattcatc acgtacctgt gcattgcgag
     1201 ccagtacatg tcaccagagt ttgccgctga ggtgacacat tcgaaatgtt ggggagtgtt
     1261 gacgcactcc ccaacgccga ttaaaaacgc ctcaattctg ctccattttc tttgacctgt
     1321 caaaacccac tcaaagcctc gtcattactg ggctaaacca ctatttcata tccgccattt
     1381 atcccttaag tataaataca aggatcacgc gcgagaattg cgcaaaaaat aaccacaatt
     1441 ttaaaccccc aaaacaagca cccccgaacg gcttacccca accttttcca cacacccgat
     1501 caccaaaaca gggaataaaa acaaaaccct gtcttacagg tggatggcct cacttcgtga
     1561 aaccatccac cccgcataag ttttttaatc ggtggtgtcg tcaatcacta aatcggaacc
     1621 ccaaagggga cccccacgat ttagcatttg acgagattaa ctctcggaga tggcatcatg
     1681 cttttaacgg actttaaaaa acggtgaacg gatgcggatt ttaatccgtg tctgtgaggc
     1741 gttgagcaac gagcaaagcg aggcggtaga aagagagcca gcggcaggct caggacgata
     1801 atccggggaa aatgtaccac tcgcagagtg ttaacatttg acatcggatt gtctatcctg
     1861 cattggtgtc gagttggcaa ggctgaggat aatgctgagg ataatgcagg atagacagag
     1921 cactagagat tgcatgcaat ctcgtaccta tcacctcagc ctgccgctgg ctcttttcca
     1981 gaactaagaa tgcgttctta aaaatccaaa cttgataccg tttaaatcta ttttcacaaa
     2041 aagagttttt accctctcgt ttgttttctg aatatataaa attaattca
//
