LOCUS       NZ_CP040074             1445 bp    DNA     linear   CON 20-JUN-2024
DEFINITION  Escherichia coli strain A1_181 plasmid p_unnamed7.1.
ACCESSION   NZ_CP040074
VERSION     NZ_CP040074.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10887807
            Assembly: GCF_006352265.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1445)
  AUTHORS   Ahlstrom,C.A., Ramey,A.M., Woksepp,H. and Bonnedahl,J.
  TITLE     Repeated detection of carbapenemase-producing Escherichia coli in
            gulls inhabiting Alaska, USA
  JOURNAL   Antimicrob. Agents Chemother. (2019) In press
  REMARK    Publication Status: Available-Online prior to print DOI:
            10.1128/AAC.00758-19
REFERENCE   2  (bases 1 to 1445)
  AUTHORS   Ahlstrom,C.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAY-2019) Alaska Science Center, USGS, 4210 University
            Drive, Anchorage, AK 99508, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. NOV-2018
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 127.0x
            Sequencing Technology             :: Illumina HiSeq; PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_006352265.1-RS_2024_06_20
            Annotation Date                   :: 06/20/2024 02:46:44
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,130
            CDSs (total)                      :: 5,006
            Genes (coding)                    :: 4,741
            CDSs (with protein)               :: 4,741
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 265
            CDSs (without protein)            :: 265
            Pseudo Genes (ambiguous residues) :: 0 of 265
            Pseudo Genes (frameshifted)       :: 80 of 265
            Pseudo Genes (incomplete)         :: 175 of 265
            Pseudo Genes (internal stop)      :: 50 of 265
            Pseudo Genes (multiple problems)  :: 36 of 265
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040074.1.
            Bacteria and source DNA available from USGS Alaska Science Center.
            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/
FEATURES             Location/Qualifiers
     source          1..1445
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="A1_181"
                     /isolation_source="feces"
                     /host="Larus sp."
                     /db_xref="taxon:562"
                     /plasmid="p_unnamed7.1"
                     /geo_loc_name="USA: Alaska, Anchorage mudflats"
                     /collection_date="2016-08-09"
     gene            complement(1..435)
                     /locus_tag="FDP43_RS25890"
                     /old_locus_tag="FDP43_25900"
     CDS             complement(1..435)
                     /locus_tag="FDP43_RS25890"
                     /old_locus_tag="FDP43_25900"
                     /inference="COORDINATES: protein motif:HMM:NF017542.4"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="WP_004193480.1"
                     /translation="MSNRITQIDTATGEEVGSFVAVIRPKQKSAFERHFTMNQDALKIL
                     AKTLTGEQFKVLMMLLADLDYENYIQIAQADIADALGMQKTNVSRSVKALIDLSVILQG
                     PKVGRSYSYRLNPQFGWKGTVSNHKKALKNGLSVIQGGRT"
                     /name="helix-turn-helix domain-containing protein"
     gene            1131..>1445
                     /locus_tag="FDP43_RS25895"
                     /old_locus_tag="FDP43_25905"
     CDS             1131..>1445
                     /locus_tag="FDP43_RS25895"
                     /old_locus_tag="FDP43_25905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="WP_250391487.1"
                     /translation="MRSPDWPDGRRNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     P"
                     /name="plasmid recombination protein"
ORIGIN
        1 ttaggttctg ccgccctgta taacgctgag gccgtttttt agtgctttct tgtggttgct
       61 gacagtacct ttccagccaa actgagggtt cagacggtaa ctgtaactgc gccctacttt
      121 tgggccttga agaatcacgg ataggtcaat tagcgcctta accgaacggc ttacattggt
      181 tttctgcata cctaaagcgt cggcaatatc ggcttgggca atttggatgt aattttcata
      241 atcgagatca gctaacagca tcatcaagac tttgaattgc tcccctgtga gggtcttagc
      301 aaggatcttt aaagcgtctt ggttcatagt gaaatgcctc tcaaaagctg acttctgttt
      361 gggtcggata actgcgacaa aactacctac ctcttcccct gtagcagtgt ctatctgagt
      421 aattcggtta ctcatttaag aggctctccc aaaaaaatag ttatcaataa tgataacaac
      481 gttatcaata atgataacta tcgtcaagcg agagccgcgc cccacaaggg ctgagagaag
      541 gctctcttct gtatcttata gcgagcgtag cgagtgccat acctaaagta cgattagtac
      601 ttgagatgag tacgattagt acttgaggtg agtacgatta gtacttgagg tgagtacgat
      661 tcttctctct agcccttggt gtgcgcgggt tcccgtatct atatctatat attaaggggg
      721 gaaataaagg ctgaaaaacg ccatttttaa acatcgaaaa acgagctttt ttgagtctgg
      781 agcgtacgga tttctatgtc cggggagtgg aaattccgct tcctcgatcg gacagactcg
      841 cggcgttgcc gctccctaat ccgatctgcg gcgagcggtt cctgctcttt caaaagcgat
      901 atccagatcc tgatttcgtc aagggcgagc ggagcgagtg catttcaccc ttgacgacgc
      961 acaaataaaa caggcttggc agtggtggga ggtgacgcgg agcgacgcct tccacctgcc
     1021 agaccgccgt tgattttgac cttctggcag cttgctgccc gaacgatttt gcgaagcaaa
     1081 gtctagtgag tacactatca tcctgatagt ggcccgccgg aggcatcgca atgcgatccc
     1141 ccgactggcc ggatggacgc cggaacgagg gggtaagcat ggcgaattac gcgataatgc
     1201 gctgcaaaaa gctgacggga atgggcagtg tggccagcgc gttgcagcac tgctacaggg
     1261 agcgtgagac gccgaatgct gacgctgaac ggacaccaga aaactactgc tctgtgtctc
     1321 agtcggcaga tgaggcgatg ggaaagctgc gggagctgtt gccggaaaaa cgccgtaaag
     1381 atgcggtact ggctgttgaa tacgttatga cggcaagccc tgagtggtgg aacgaggcca
     1441 caccg
//
