LOCUS       NZ_CP041117             3133 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain ECCTRSRTH03 plasmid unnamed7, complete
            sequence.
ACCESSION   NZ_CP041117
VERSION     NZ_CP041117.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07450616
            Assembly: GCF_002246595.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3133)
  AUTHORS   Fouts,D., Sutton,G., Nguyen,K., White,R., D'Souza,R. and
            Thamlikitkul,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2019) Bioinformatics, JCVI, 9605 Medical Center
            Drive, Suite 150, Rockville, MD 20850, USA
REFERENCE   2  (bases 1 to 3133)
  AUTHORS   Fouts,D., Sutton,G., Nguyen,K., White,R., D'Souza,R. and
            Thamlikitkul,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JUN-2019) Bioinformatics, JCVI, 9605 Medical Center
            Drive, Suite 150, Rockville, MD 20850, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 23-MAY-2019
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: ECCTRSRTH03
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: NA
            Genome Coverage                   :: 150.12x
            Sequencing Technology :: Illumina NextSeq 500, Oxford Nanopore
            MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002246595.2-RS_2024_06_20
            Annotation Date                   :: 06/20/2024 03:02:23
            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)                     :: 4,934
            CDSs (total)                      :: 4,822
            Genes (coding)                    :: 4,583
            CDSs (with protein)               :: 4,583
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 78
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 239
            CDSs (without protein)            :: 239
            Pseudo Genes (ambiguous residues) :: 0 of 239
            Pseudo Genes (frameshifted)       :: 74 of 239
            Pseudo Genes (incomplete)         :: 168 of 239
            Pseudo Genes (internal stop)      :: 35 of 239
            Pseudo Genes (multiple problems)  :: 37 of 239
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041117.1.
            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..3133
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ECCTRSRTH03"
                     /isolation_source="Rectal swab"
                     /host="Swine"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="Thailand: Nakhon Pathom"
                     /lat_lon="13.8199 N 100.0622 E"
                     /collection_date="2016-08-01"
     gene            complement(17..769)
                     /locus_tag="CI675_RS24680"
                     /old_locus_tag="CI675_0024680"
     CDS             complement(17..769)
                     /locus_tag="CI675_RS24680"
                     /old_locus_tag="CI675_0024680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001127762.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016249639.1"
                     /translation="MDTTSLISSISVPRLSFYETFLGCATDQEKVGAYVAYQDLSGDFF
                     CLVQMIEVALRNAINNTIKANHGPAWYDSIPQTKKSQDLVLNAKQKALDECGVRYTDDD
                     VICRLTFGFWVYMLDAPYRDTQRPCYIWTPENKAKTFPHAKNPLGGGDMKVKALFDEFH
                     KVLLFRNRLFHHEPIWKKHHCKSHSQAINNMLKEFNFLMNALSIVSNEKKELIEFIGHD
                     RRFYERCTIEYVMGIIGRIKCRELKVAG"
                     /name="hypothetical protein"
     gene            complement(1228..1551)
                     /gene="mobA"
                     /locus_tag="CI675_RS24690"
                     /old_locus_tag="CI675_0024690"
     CDS             complement(1228..1551)
                     /gene="mobA"
                     /locus_tag="CI675_RS24690"
                     /old_locus_tag="CI675_0024690"
                     /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            1836..2030
                     /locus_tag="CI675_RS24695"
                     /old_locus_tag="CI675_0024695"
     CDS             1836..2030
                     /locus_tag="CI675_RS24695"
                     /old_locus_tag="CI675_0024695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041623.1"
                     /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_025492124.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDSLDADAQAAMCEKLHELA
                     EELQNSIQTRFESESGTGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2507..2620
                     /locus_tag="CI675_RS25625"
                     /old_locus_tag="CI675_0024710"
     CDS             2507..2620
                     /locus_tag="CI675_RS25625"
                     /old_locus_tag="CI675_0024710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071790583.1"
                     /translation="MHEPPVQSDYCALSGNYRLESNPERHDLSPLAAATGN"
                     /name="replication initiation protein"
     gene            2982..3125
                     /locus_tag="CI675_RS25015"
     CDS             2982..3125
                     /locus_tag="CI675_RS25015"
                     /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_152918943.1"
                     /translation="MNTKVLFVKKALKSITCAILSLLPALSRAVTELRSLSAARLKAGK
                     SF"
                     /name="hypothetical protein"
     Typing          complement(1561..1798)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.75"
                     /coverage="99.0"
                     /evalue="1e-116"
     Typing          2329..2778
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.494"
                     /coverage="90.0"
                     /evalue="1.02e-154"
     Typing          complement(1232..1551)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="2.32e-62"
ORIGIN
        1 catttttcct taaaagtcaa ccggctacct taagctccct gcacttaatc ctccctataa
       61 tccccataac atactctatc gtgcagcgtt cataaaagcg cctatcgtgc ccaataaact
      121 caataagttc ctttttctcg ttagagacga tactcaaggc attcattaaa aaattgaact
      181 ctttcaacat attatttatg gcttgactat gcgacttgca gtggtgtttt ttccaaatag
      241 gctcatggtg aaaaagtcga ttcctaaaca aaagaacttt atgaaactcg tcaaacaacg
      301 ctttaacctt catatccccc ccacccaaag gattcttcgc atgaggaaat gtttttgcct
      361 tgttctctgg agtccagatg tagcacggcc tttgcgtatc cctatatggg gcatctaaca
      421 tataaaccca aaagccaaag gttagacggc aaataacatc atcatccgta taccttacgc
      481 cacactcatc tagcgctttt tgtttcgcat ttaaaacaag atcctgagat ttctttgttt
      541 gaggtataga gtcgtaccaa gcaggcccat gattagcttt gattgtattg tttatcgcat
      601 tacgcagagc aacctcaatc atctggacaa gacaaaaaaa atcgccagac agatcttggt
      661 aggcaacgta tgccccaacc ttttcttgat cagtagcgca cccaagaaat gtttcataga
      721 aagataatct tggtacagaa attgagctaa ttaaacttgt tgtatccatg aaaactcact
      781 tatctcttta ctatgaatat ttttcagact accattacaa cattcgagga gcaggcgaac
      841 taccgttttt ctgtgtacct ctagagcgta aaatataaca aaaaagccca ctacagagtg
      901 ggcttttttg ttatatttat ctatatgaaa caaccagtta tagttattgt ttcataataa
      961 gaattgaata ctcttcacaa tccacaacat cagaaaatac tttgctgcca atttaccata
     1021 actcccctta cgcgcaccgc taaaacgcgc tgaacgcgat tctgccgcaa acaccgcaaa
     1081 aagagatgtt ttacccagtg aaaaccggaa aaatgcgtca ggaccgtttt cagctcactg
     1141 catagctatg catgaaagtg aatggcgatc ggtttggggc cttacggcgt tcataccgtc
     1201 tgttttcgac agtttctctc cgggaagcta atctgccata agcctggata acagggcccg
     1261 gtgatactcc gtaatagcga tcagcacctc cgcatactct ctgtccccga cacgcttgcc
     1321 gtcgataaag agttttttct gtaacgcccc cagtctcata acttctttca gtacccgatc
     1381 atcagtcagt gagttaactt tcttaccgag agctgccgcc cgtaaaaaac cggaaacggt
     1441 cttgccgcat tcagcagccc tttttctgat ttcctggtct tcttctgccg tcagacgaac
     1501 agggcgactg atagcccgcc tgcgcgtatt acttccactt cgttttgtca taaaacatgg
     1561 ctccgtatct gacatggggt gtcggggcga agccctgacc agggtaattg taatagcgcg
     1621 catgtatgcg cggtataaca attacacatc ctgtcctgtc agcaagttcg aattaccgac
     1681 aaaggcacgg cagttttttg gcagtgacag tattgtcagg cagaaatgcc cgtcaaagag
     1741 tcagacgaca gaataccggc ggcaaaactg tcgaaaagtg gtacgcgata taatcacacg
     1801 acgcagatga cagacagaac ggagaaaaca gaaagatgaa caagcagcag caaaccgcac
     1861 ttaacatggc aaaattcata aaaagccaga gcctgacgct gctcgaaaaa ctggactcac
     1921 tcgatgctga tgcacaggcc gccatgtgtg agaaactgca cgaactcgca gaagaactcc
     1981 agaacagcat acagacacgc tttgaatcgg aaagtggcac cggggaataa cagtgttcct
     2041 acaccagaca ggatgcagaa cgatataccg gtgcgtaagg agaaaatacc acataaggcg
     2101 ctcttccgct tcctcgctca ctaactcgct acgctcggtc gttcggctgc ggcgagcggt
     2161 atcagctcac tcaaagacgg taatgaggtt atccacagaa tcaggggata acgccaaaag
     2221 aaacatgtga gcaaaaaaca agaacccgaa aaaggccgcg ccggtggcgt ttttccatag
     2281 gctccgcccc cctgacgagc atcacaaaaa tcgacgctca agtcagaggt ggcgaaaccc
     2341 gacaggacta taaagatacc aggcgtttcc ccctgatggc tccctcgtgc gctctcctgt
     2401 tcctgccttt cggtttaccg gtgtcattcc gctgttatgg ccgcgttatc tcattccacg
     2461 cctgacactc agttccgggt aggcagttcg ctccaagctg gactgtatgc acgaaccccc
     2521 cgttcagtcc gactactgcg ccttatccgg taactatcgt cttgagtcca acccggaaag
     2581 gcacgactta tcgccattgg cagcagccac tggtaactga tttagaggag ttagtcttga
     2641 agttacgtgc cagttaaggc taaactggaa gaacaagttt tggtgactgc gctcctctta
     2701 agccagttac cgaggttcag aaacttgccg gttgctgaac cttcgaaaaa ccaccttgcc
     2761 gggtggtttt ttcgttttta agattacgat gggcgcgata tgaactcaag gaaatccgca
     2821 attaaattat aaaagtttgt ggattaatgg aaaaactgat gtgaatcagc tatttatcct
     2881 taagatttga tgtcagatat ggtataatta accattcaaa tagatggaat aaaaagtcaa
     2941 cgctgccatt agaacggcat aagaaataga ggattatgaa aatgaatact aaagttcttt
     3001 ttgtgaaaaa agccttgaaa tcaattactt gcgcaattct ttcgctctta ccggctttaa
     3061 gtcgcgcagt aacagagtta cgtagccttt cggctgcgcg acttaaagcc ggtaagagct
     3121 tttgattgta tca
//
