LOCUS       NZ_CP041118             3005 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain ECCTRSRTH03 plasmid unnamed8, complete
            sequence.
ACCESSION   NZ_CP041118
VERSION     NZ_CP041118.1
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 3005)
  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 3005)
  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
            CP041118.1.
            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..3005
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ECCTRSRTH03"
                     /isolation_source="Rectal swab"
                     /host="Swine"
                     /db_xref="taxon:562"
                     /plasmid="unnamed8"
                     /geo_loc_name="Thailand: Nakhon Pathom"
                     /lat_lon="13.8199 N 100.0622 E"
                     /collection_date="2016-08-01"
     gene            complement(join(2666..3005,1..44))
                     /locus_tag="CI675_RS24715"
                     /old_locus_tag="CI675_0024715"
     CDS             complement(join(2666..3005,1..44))
                     /locus_tag="CI675_RS24715"
                     /old_locus_tag="CI675_0024715"
                     /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_022631129.1"
                     /translation="MKFFKPKTDAIEYIRVEPSFSKTSSNINNAKSGSDTNSQPGFILR
                     SQIEEMIKNHRPKTEKEIKAESEGLIRLCSMAFIFLIVLSIFMLIVYFGIKDRELPDFA
                     NNLMALMTTLVGAIGGFIYGTKK"
                     /name="hypothetical protein"
     gene            complement(41..718)
                     /locus_tag="CI675_RS24720"
                     /old_locus_tag="CI675_0024720"
     CDS             complement(41..718)
                     /locus_tag="CI675_RS24720"
                     /old_locus_tag="CI675_0024720"
                     /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_023233475.1"
                     /translation="MENKAVTISTQLAIFIDSTIARPDLLFNSLNSEIGEVIDAMPQTL
                     PLPADAPADIPRVIGTSSFGKFNLNISLNRIDFVENYTPTEEIEKSVTEFKLKCNTLIA
                     TIFQKYGVVRIGLVGNYYIPHKNPSQLIADLYLNENKRNLDEITIRINNRDTFKNIQIN
                     NVINLSQGQVTAQNYNGNAVIVQLDYNSTDNNTPLDEGLTLALFKEKSIAYNSKHVEDV
                     SGL"
                     /name="hypothetical protein"
     gene            complement(919..1080)
                     /locus_tag="CI675_RS25630"
                     /old_locus_tag="CI675_0024725"
     CDS             complement(919..1080)
                     /locus_tag="CI675_RS25630"
                     /old_locus_tag="CI675_0024725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_071784682.1"
                     /translation="MHEPPVQPDHCALSGNYRLESNPVRHAKAPLAAAIGNRVSRARFV
                     QMLTEFLK"
                     /name="replication initiation protein"
     gene            1284..1517
                     /locus_tag="CI675_RS24735"
                     /old_locus_tag="CI675_0024735"
     CDS             1284..1517
                     /locus_tag="CI675_RS24735"
                     /old_locus_tag="CI675_0024735"
                     /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_015675076.1"
                     /translation="MSVDFCDARQGGGAYGKTPAVLASSGALLFAHMFFPALSPDSVDN
                     RITAFECADTARRSRTTERSESVSEEAEERLM"
                     /name="hypothetical protein"
     gene            complement(1567..1761)
                     /locus_tag="CI675_RS24740"
                     /old_locus_tag="CI675_0024740"
     CDS             complement(1567..1761)
                     /locus_tag="CI675_RS24740"
                     /old_locus_tag="CI675_0024740"
                     /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_001041644.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2034..2357
                     /gene="mobA"
                     /locus_tag="CI675_RS24745"
                     /old_locus_tag="CI675_0024745"
     CDS             2034..2357
                     /gene="mobA"
                     /locus_tag="CI675_RS24745"
                     /old_locus_tag="CI675_0024745"
                     /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"
     Typing          1799..2025
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.25"
                     /coverage="99.0"
                     /evalue="2.24e-83"
     Typing          complement(1009..1538)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.6"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          2035..2354
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.96e-62"
ORIGIN
        1 cgaatgtatt caatcgcatc tgtttttggt ttgaaaaatt tcataatcca ctcacatcct
       61 caacatgctt ggagttataa gcaatggatt tttctttaaa tagggctaag gttaaccctt
      121 cgtcaagtgg tgtgttatta tcggttgagt tgtagtcaag ttgaactatc accgcatttc
      181 cattgtagtt ctgtgcggtt acttgtcctt ggcttaaatt gatgacattg tttatttgta
      241 tatttttgaa tgtatcgcgg ttatttattc ttattgttat ttcatctaaa tttcttttgt
      301 tttcgtttaa atacagatca gctattagtt gagatggatt tttatgtggg atgtaatagt
      361 taccaactag gccgattctt acgactccat atttttggaa tattgttgct attagcgtat
      421 tgcactttaa tttgaattcc gttactgatt tttcgatctc ctcagtaggg gtgtagtttt
      481 ctacaaaatc tattctgttt agtgatatgt ttaagttgaa cttgccaaag gacgatgtgc
      541 caataacgcg agggatatct gcaggtgcat ctgcaggcag gggaagcgtc tgtggcattg
      601 cgtctataac ttcgccaatt tctgagttta ggctattaaa gagaagatct ggtctagcta
      661 tggtgctgtc aataaatatt gctagctgtg ttgatattgt gacggccttg ttttccattt
      721 tttctttcct attttgcatt ggtattaatt gaagtattgc gaaattaacg tgttgtgagt
      781 atcttaaacg aaaaaaccac cctggcaggt ggtttttcga aggttagcta atcctggcag
      841 attgtctaac cgggtaactg gcttcagcag agcgcagata ccaaatactg tccttctagt
      901 gtagccgtag tcaggccatc acttcaagaa ctctgtaagc atctggacaa atctcgctct
      961 gctaactcgg ttaccaatgg ctgctgccag tggtgctttt gcatgtctta ccgggttgga
     1021 ctcaagacga tagttaccgg ataaggcgca gtggtcgggc tgaacggggg gttcgtgcac
     1081 acagcccagc ttggagcgaa cgacctacac cgggccgaga tacctacagc gtgagctatg
     1141 agaaagcgcc acgcttcccg aagggagaaa ggcggacagg tatccggtaa gcggcagggt
     1201 cggaacagga gagcgcacga gggagcttcc agggggaaac gcctggtatc tttatagtcc
     1261 tgtcgggttt cgccacctct gacttgagcg tcgatttttg tgatgctcgt caggggggcg
     1321 gagcctatgg aaaaacgcct gcggtgctgg cttcttccgg tgctttgctt tttgctcaca
     1381 tgttctttcc ggctttatcc cctgattctg tggataaccg tattaccgcc tttgagtgcg
     1441 ctgacaccgc tcgccgcagt cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg
     1501 aagagcgcct tatgtgacat tttctcctta cgctctgttg tgccgttcgg catcctgccc
     1561 tgagcgttat atctctgtgc tattttctac ttcaaagcgt gtctgtatgc tgttctggag
     1621 ttcttctgcg agttcgtgca gcttctcaca catggtggcc tgctcgtcag catcgagtgc
     1681 gtccagtttt tcgagcagcg tcaggctctg gctttttatg aatcccgcca tgttgagtac
     1741 agtttgctgc tgcttgttca tctttctgtt ttctccgttc tgtctgtcat ctgcgtcgtg
     1801 tgattatatc gcgcaccact tttggaccgt cttaccgccg gtattctgcc gacggacatt
     1861 tcagtcagac aacactgtca ctgccaaaaa actgccgtgc ctttgtcggt aattcgagct
     1921 tgctgacagg acaggatgtg taattgttat accgcgcata catgcacgct attacaatta
     1981 ccctggtcag ggctttgccc cgacacccca tgtcagatac ggagccatgt tttatgacaa
     2041 aacgaagtgg aagtaatacg cgcaggcggg ctatcagtcg ccctgttcgt ctgacggcag
     2101 aagaagacca ggaaatcaga aaaagggctg ctgaatgcgg caagaccgtt tccggttttt
     2161 tacgggcggc agctctcggt aagaaagtta actcactgac tgatgatcgg gtactgaaag
     2221 aagttatgag actgggggcg ttacagaaaa aactctttat cgacggcaag cgtgtcgggg
     2281 atagggaata tgcggaggtg ctgatcgcta ttacggagta tcaccgtgcc ctgttatcca
     2341 ggcttatggc agattagctt cccggggaga aaactgtcga aaacagacgg tatgaacacc
     2401 gtaagccccc aaaccgatcg ccattcactt tcatgcatag ctatgcagtg agctgaaagc
     2461 aatcctgacg catttttccg gtttaccccg gggaaaacat ctctttttgc ggtgtctgcg
     2521 tcagaatcgc gttcagcgcg tttttgcggt gcgcgtaatg agatgttatg gtaaatggtg
     2581 tcaggtaacg gttgtaaaag ccccgaagta tggggctggt gtgcttgtgt gttatttgtt
     2641 ttttttattt gtgtttttgt ctgtgttatt tttttgttcc atatataaaa ccacctatcg
     2701 ctccaactaa tgttgtcatt agtgccatca ggttatttgc aaaatctggt agttctctat
     2761 cttttattcc gaaataaacg attaacataa aaattgataa aactattaaa aatataaagg
     2821 ccatggagca aagccttata agaccttcgc tttcagcctt tatttctttt tctgttttcg
     2881 gtctgtggtt ttttatcatt tcctctattt gagatcttaa aatgaatcca ggctgtgagt
     2941 ttgtgtcact tcctgatttc gcattattta tattgctact tgtttttgag aatgatggtt
     3001 ctaca
//
