LOCUS       NZ_CP149503             3173 bp    DNA     circular CON 15-APR-2024
DEFINITION  Escherichia coli strain FDA strain Seattle 1946 plasmid unnamed3,
            complete sequence.
ACCESSION   NZ_CP149503
VERSION     NZ_CP149503.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38321313
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3173)
  AUTHORS   Hall,M.B. and Wick,R.
  TITLE     Benchmarking reveals superiority of deep learning variant callers on
            bacterial nanopore sequence data
  JOURNAL   bioRxiv (2024) In press
REFERENCE   2  (bases 1 to 3173)
  AUTHORS   Hall,M.B. and Wick,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-MAR-2024) Department of Microbiology and Immunology,
            The University of Melbourne, 792 Elizabeth Street, Melbourne, VIC
            3000, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                :: 19-DEC-2023
            Assembly Method              :: Trycycler v. 0.5.1
            Assembly Name                :: ATCC_25922__202309
            Genome Representation        :: Full
            Expected Final Version       :: Yes
            Genome Coverage              :: 1702x
            Sequencing Technology        :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Name              :: GCF_038098005.1-RS_2024_04_15
            Annotation Date              :: 04/15/2024 12:41:51
            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)                :: 4
            CDSs (total)                 :: 4
            Genes (coding)               :: 4
            CDSs (with protein)          :: 4
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149503.1.
            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..3173
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDA strain Seattle 1946"
                     /isolation_source="clinical isolate"
                     /culture_collection="DSM:1103"
                     /culture_collection="NCIB:12210"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
     gene            complement(117..440)
                     /gene="mobA"
                     /locus_tag="WJ042_RS00005"
                     /old_locus_tag="WJ042_25295"
     CDS             complement(117..440)
                     /gene="mobA"
                     /locus_tag="WJ042_RS00005"
                     /old_locus_tag="WJ042_25295"
                     /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            724..918
                     /locus_tag="WJ042_RS00010"
                     /old_locus_tag="WJ042_25300"
     CDS             724..918
                     /locus_tag="WJ042_RS00010"
                     /old_locus_tag="WJ042_25300"
                     /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_001041622.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALNADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1753..2181)
                     /locus_tag="WJ042_RS00015"
                     /old_locus_tag="WJ042_25305"
     CDS             complement(1753..2181)
                     /locus_tag="WJ042_RS00015"
                     /old_locus_tag="WJ042_25305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            2473..2901
                     /locus_tag="WJ042_RS00020"
                     /old_locus_tag="WJ042_25315"
     CDS             2473..2901
                     /locus_tag="WJ042_RS00020"
                     /old_locus_tag="WJ042_25315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(450..686)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.49e-121"
     Typing          954..1478
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.085"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          complement(121..440)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="2.23e-62"
ORIGIN
        1 atgcgtcagg atcgttttca gctcgctgca tagctatgca tgaaagcgaa tggtgatcac
       61 tttgggagct tacggtgttc ataccgtcag ttttcgacag ttttctctcc gggaagctaa
      121 tctgccataa gcctggataa cagggcacgg tgatactccg taatagcgat cagcacctcc
      181 gcatactccc tgtccccgac acgcttgccg tcgataaaga gttttttctg taacgccccc
      241 agtctcataa cttctttcag tacccgatca tcagtcagtg agttaacttt cttaccgaga
      301 gctgccgccc gtaaaaaacc ggaaacggtc ttgccgcatt cagcagccct ttttctgatt
      361 tcctggtctt cttctgccgt cagacgaaca gggcgactga tagcccgcct gcgcgtatta
      421 cttccacttc gttttgtcat aaaacatggc tccgtatctg acatgggtgt cggggcaaag
      481 ccctgaccag ggcaattgta atagcgtgca tgtatgcgcg gtataacaat tgcacatcct
      541 gtcctgtcag caagctcgaa ttaccgacaa aggcacggca gttttttggc agtgacagtg
      601 ttgtctgaca gaaatgcccg tcaaaaagcc aagcggcaga atagcggcag caaaacagtc
      661 gaaaagtggt acgcgatata atcacacaac gcagatgaca gacagaacgg agaaaacgaa
      721 aagatgaata agcagcagca agccgtactc aacatggcgg gattcataaa aagtcagagc
      781 ctgacgctgc tcgaaaaact ggacgcactc aatgccgacg aacaggccgc catgtgtgag
      841 aaactgcacg aactcgcaga agaactccag aacagcatac agacacgctt tgaagcggaa
      901 aatcttaccg ggatataacg catccggaca ggatgcagaa cggcatagag gagcgtaagg
      961 agaaaatgtc acataaggcg ctcttccgct tcctcgctca ctgactcgct acgctcggtc
     1021 gttcgactgc ggcgagcggt gtcagctcac tcaaaggcgg taatacggtt atccacagaa
     1081 tcgggggata aaaccggaaa gaacatgtga gcaaaagaca aagacccaga agaagggcgc
     1141 gcgggaggcg tttttccata ggctccgccc ccctgacgag catcacaaaa atcgacgctc
     1201 aagtcagagg tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctggaag
     1261 ctccctcgtg cgctctcctg ttccgaccct gccgcttacc ggatacctgt ccgcctttct
     1321 cccttcggga agcgtggcgc tttctcatag ctcacgctgt tggtatctcg gttcggtgta
     1381 ggtcgttcgc tccaagctgg gctgtgtgca cgaacccccc gttcagcccg accgctgcgc
     1441 cttatccggt aactatcgtc ttgagtccaa cccggtaaga cacgacttaa cgccactggc
     1501 aacggccact ggtaagcagg atgtgcgaga gatgtaacga gagttcttga agtggcggcc
     1561 taactgaggc tacactgaaa ggacagtatt tggtgacatg tctcgcacaa gactgttacc
     1621 acggttagag aatctgccag gattaactaa ccttcgaaaa accacctgcc agggtggttt
     1681 tttcgttttt acaatagtga gattacgacg agactgaatg aatctcaaga tttcatttag
     1741 cctgccgctc gatcattcaa agttttgagg tagcttcatt gggtcatggt atccaagctc
     1801 taaaagcttt atatggttcg gtgtcagccg ctggaaatga ataacccagt cagaaacctt
     1861 gtatttccca tgaaacgtat ctttaaaaac cggatcgcct aaatgagcat gccataattt
     1921 gttagctcta gcatacttct caatagcttc tttgttttcg taatgatcag gcactttcca
     1981 cgatggcgat actttgccag tccaagctgg atatcctttt aaaggatcgc caaagagatt
     2041 gtatttttca aaatgctcaa tgaaatcatc gattttatcg agtgtttttg cagaatatct
     2101 ggatgtgtaa taaaggttga aggtctcaga gaatgagaca atattcaatt gtggattttg
     2161 cgcgcctgct ccgctgccca tgctcttctc tgctcccgac ttagaccaga tggcattgta
     2221 acagacttct cattcgctct ggaaatcaac agagacaagg atacgccaaa aacctcaata
     2281 tctttaacaa gatcatgacg ttgttcggtt ttcatatcgc taactccgta tctaattcag
     2341 gcaggaaaaa atcttttcct cgttttcaga gtagtctttt ttggttgcac aataatggcg
     2401 ccagtgtcac cctattcata tgaatatacc atataatata tactttaaat attttggggc
     2461 ttaggaaaat caatgactta ctccgttaag aataaatgga aagctggcgg tttgtctctt
     2521 ggctggacag cagtgcctac cgtattgttt tttatacaaa acgagaaaaa gctaacttca
     2581 gtggccttta acacactact taacctgatc gttcactggt ggagtttgca agagtggccg
     2641 catccgtcaa tggaaagtct agccatacgt atgggggttt ctgtacggac tgttcagaga
     2701 gctatcaatg atcttgaaaa agctaatctc ttggacaaga aaccaacatc gaagagtgat
     2761 cgccgatatg gtggtcgcaa tatttatgat ctaacaaagc tagttgacta cctagataca
     2821 atgggtccat cagtagctga acaagttaag aaaccacgcc ataaaaaacc ggtatatacc
     2881 gtaagaaaaa cgacagctta aaaaagcaca atggaactga gcgcgagcga tgcacgatag
     2941 caaaacgata tattacttat tgcattggtc ttggtagccc tgcttctggc taaaccactg
     3001 tcaggagtaa ttggctttgc ctgtaatggg ttcatcgctt cacagttaaa gttatcgcat
     3061 agctcatata tttaccataa tcccttaatt gtacgcacca ctgaaacgcg ctgaacgcga
     3121 ttctgacgca gacaccgcaa aaagagatgt tttaccccgg aaaaacagga agg
//
