LOCUS       NZ_CP041115             6078 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain ECCTRSRTH03 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP041115
VERSION     NZ_CP041115.1
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 6078)
  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 6078)
  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
            CP041115.1.
            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..6078
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ECCTRSRTH03"
                     /isolation_source="Rectal swab"
                     /host="Swine"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="Thailand: Nakhon Pathom"
                     /lat_lon="13.8199 N 100.0622 E"
                     /collection_date="2016-08-01"
     gene            complement(join(4367..6078,1..16))
                     /locus_tag="CI675_RS24605"
                     /old_locus_tag="CI675_0024605"
     CDS             complement(join(4367..6078,1..16))
                     /locus_tag="CI675_RS24605"
                     /old_locus_tag="CI675_0024605"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000012961.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like bacteriocin tRNase domain-containing
                     protein"
                     /protein_id="WP_032490394.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGHGNGGGNGNSGGGSNSSVAAVAFGFPALAAPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPKMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTNLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin-like bacteriocin tRNase domain-containing
                     protein"
     gene            complement(238..771)
                     /locus_tag="CI675_RS24610"
                     /old_locus_tag="CI675_0024610"
     CDS             complement(238..771)
                     /locus_tag="CI675_RS24610"
                     /old_locus_tag="CI675_0024610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_094316166.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVAREILRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(774..1700)
                     /locus_tag="CI675_RS24615"
                     /old_locus_tag="CI675_0024615"
     CDS             complement(774..1700)
                     /locus_tag="CI675_RS24615"
                     /old_locus_tag="CI675_0024615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001314449.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1877..2275
                     /locus_tag="CI675_RS24620"
                     /old_locus_tag="CI675_0024620"
     CDS             1877..2275
                     /locus_tag="CI675_RS24620"
                     /old_locus_tag="CI675_0024620"
                     /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_001222916.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(2469..3404)
                     /locus_tag="CI675_RS24630"
                     /old_locus_tag="CI675_0024630"
     CDS             complement(2469..3404)
                     /locus_tag="CI675_RS24630"
                     /old_locus_tag="CI675_0024630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011666805.1"
                     /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_001271369.1"
                     /translation="MSAALQYFEENLPLRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDLNAPAPNITIKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAIERALCEKLGADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSTSA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTAETFAQYVADTHTPEIQAKRGRKGGIAKGEAYDDKRFMAL
                     CMLENGYSQKAIAAMLEVSTRTIRNWKSGK"
                     /name="replication initiation protein"
     gene            complement(3899..4042)
                     /locus_tag="CI675_RS24645"
                     /old_locus_tag="CI675_0024645"
     CDS             complement(3899..4042)
                     /locus_tag="CI675_RS24645"
                     /old_locus_tag="CI675_0024645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000724569.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_001314446.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     gene            complement(4104..4364)
                     /locus_tag="CI675_RS24650"
                     /old_locus_tag="CI675_0024650"
     CDS             complement(4104..4364)
                     /locus_tag="CI675_RS24650"
                     /old_locus_tag="CI675_0024650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000412701.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_000420692.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     BGC             1..6078
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          complement(2470..3404)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.444"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(778..1700)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 catctccacc gctcataaaa attccctctt ttaagcgtta aaacaattaa ttacatagtt
       61 aatactgtac ataaaaccac tggttttatg tacagatcaa aaagtactcg ccattatttt
      121 ttctgtcaag tcagggggag gatatttttt ggcagttcgg aggaatcact catgaaaacg
      181 gtgaacagaa cgcgaaatcc tttcgcgggt cgtgaggcgt tggacaagcg aagcgcgtca
      241 gtttttccgg ctcttgcccg tgacaggttt ctccgccagt ttatcttcca gtgtcacaac
      301 tttctgatac accgccgctg tggcgttgta gttcctgtcg agcattgttt tcattcccca
      361 tccaagcaca cagaacataa ccagaaaagc cactgacacc ccacccagcc atttccagct
      421 atacccttta agggtgttgt attcctgcac gatattgctg tgaattgtcg caatatccct
      481 gttcagggca tccgcgtttg ccttcatgtt tgcgactgac tcttccagcc gctgaaaatc
      541 ctggctgatg cgctcaccta tcagccctgc aacatccagc ttctgcacct cgtttctgac
      601 ttcatccctg acctgttttg ccacaccgtc agaaatatcc cgatatccgc gaagtatttc
      661 ccttgccaca gccagagaat cagcaacagc tttctgttgc tccattgcgg tatgttgcag
      721 atgctccacc gataacagga gcgtgagtaa tttttcttct gtgctggcca tgttcagaat
      781 cccatagaaa atccacgtga cggtgattta acccgttcag gttcagttcg gttctgtctg
      841 ctcactctgt ctctcatgtc aaagccatgc tcccgcgcaa catcatgttg cagccttctg
      901 accagttcat gttgcttaac cggagtgtcc agccattccc tgatgtcatg cccgaccgtt
      961 cgcgcctgtt caagatggcg ggaatagtcc ggttcagacc gtttttgcat gatgtcatga
     1021 cgctgggcat catcaagccg tccggcagct tcaaaaccca gatgcacttc gggacgtcgt
     1081 tcaatgccct gttctttcag cgtccggcag tcaatgaagc ccctttcaaa gccatgcttt
     1141 ctcatatgtt cgttgtgctt cacctcccag cgttttcgca attcccgcaa ctgctctttt
     1201 tgctgagtga gagtcaggct tccggaatcc tttttcgcac ctccccgctc gggatacctg
     1261 gcgttatagc gccggaaata ctgttccggt gtacgttcaa tgccatcatt cacacgctgg
     1321 ctcatcatga tatgcgcatg aggctgttcg ccgccgtcaa tgctcgcttt cggattgtga
     1381 atggcaaaac tccaggcgtg ccgttcgcca gcttcctgac gtacaaaatc ctgcaccagt
     1441 tcaaggcgct gttccgctgt cagttcacgg ggtaatgcaa tttcaagttc ccgataggtc
     1501 gaaccgttcg cacgttcaaa ctggtcagcc gcctgccaga aatgtgaggg attatctcgc
     1561 gcccattccg gcatgtttcc gtgtgcggaa tattccaaat cctgacggtc gcggtatttc
     1621 tctttgcgct cgatgtaatc ggcgtggttt gcagcctgcc ccttgccacc aaatttaacg
     1681 ctgaggtgat aggttgccac ggtttcagcc ctccgcagga gcgcactgtt tctcgacgaa
     1741 ggagagaaac atataagtgc gcttccttct aattttacga attagcacgg aagatacccc
     1801 cctgcaccca ccgaccgcaa gcgatatact gcacgaccac aacacaccgc aaaaaacacc
     1861 agggagcacc gcgaacatgc gcatcagcaa catcgaatgg ctgaagaaac ggatcggatt
     1921 catcaggaag ctcggagaac agaccgcacg acagagacag attattgacc tgctcgacaa
     1981 cgaagcagga ctcacagaac aggaacgcaa actcctccac gtactggcaa cagcggaaaa
     2041 aaacgactta caggcacagg agagcgaacg aaaacaggcg gtccaaaaac gaatcgaggg
     2101 aaaaaaacaa cgacgagaac gcaatcaccg actctttctc gcggctgggc tactgatcga
     2161 agcaggactg gtagacacaa aaacaggcga gctatgctat aaaaaagaca ggatattaca
     2221 ggcacttaag gaaattaagt acgatctgga gacatcccca aacccagacg cgtaagtgcc
     2281 tccatccgtg ttccggttcc ctggtgcttc ctcgctcatt cgctcgctac gctcggtcat
     2341 gagactgcgg cgagcactac cagcacaatc atgcggaaaa cagcaccatt gcagggctga
     2401 acggggaaaa acggcaaaag acctactgct caaaaaaacg ccagaaaggc gctgttatct
     2461 gatataggct attttccgct tttccagttt cgaatggttc gagtagaaac ctccaacatc
     2521 gccgcaatag ctttctgaga atatccattc tccagcatac atagcgccat gaaacgcttg
     2581 tcatcgtagg cttcgccttt agcgatgcca cctttcctgc ctctcttggc ctgtatttct
     2641 ggcgtgtgcg tatcagccac atactgtgcg aaagtttccg ccgtgaagtt cctgtgcgtg
     2701 tatttcgcaa tactcttgcc aatagcccga cattcaggag gtgaaagcgg aacgggaagc
     2761 gatgcgttgt acatttcgac acgctgaatc acggcatcaa gccactgtga gaatgctggc
     2821 cagccctgac gaatcgccct gtaagcccat ttgcgcgtca tttcgaacag atggcagttt
     2881 cgccccatcc cgtaatgttt atcgatgcta cggcgcgctg aagtgctcaa atcgagataa
     2941 tcagccagtt catcgagggt ataagcttcc tcacgccact ccatcacctg ccattccaga
     3001 tggaacggat ttttgcaaat cagtccgctg tagtttacat ctgcgcccag tttttcacac
     3061 aacgcacgtt caatcgcggc ggcgtatttc agcgccttaa ccgaagcatc aggcgcggtt
     3121 ctcacggcga tattgagtgc gtagagcagg tgggcgtgac cgttcacggg attttttatg
     3181 gtgatgttcg gtgcgggggc gttcaggtcg ctccagtcaa tcgcagcccc ctcgcggtca
     3241 acgtcaaaaa ccagccagaa ctgcgcatga ggttggttct gctggatata ccgtgcaaga
     3301 agcgcgcgcc ctttaccgga gatacgaagg ccgaaagcga gatcatccgt gtgatagggg
     3361 cggaggggta aattttcttc gaagtattga agcgcggcgc tcatgtgtta cgattccttc
     3421 taggttatcg accgacctcg cccctgtatt ctcgtgacaa tcttggcgga gagacacgaa
     3481 tttcaggggc gtttgttttt cagtcgctta cactacaccc aacggcaaat cctgtcgatc
     3541 cttcccgaaa acccgatcca tttaccataa ctcccgttgt acgtaccctg taaaacgccc
     3601 tcaatcgctt tctggcgcaa aaaacgcaaa aagacaagga aacaccaggc taaaccagaa
     3661 aaacgcgcca gaatcgtttt tagagggctg cataactatg cacgaaagcg atgcgcgatc
     3721 gatttcgact gttccgaagg gcgaacaggt caaaatgaca agttttctcc ccctgggtgg
     3781 aaagttctgc acggggattt tagctctcat ctcccgcatg gaatttttgt gacatttcaa
     3841 aaaaaagcgc atcagaatca gcctgacacg ctttgttttt gtcaaagagg atttcgggtt
     3901 actgcgttgc taatccggtc acttcagctg ttgatgacgg ggatacagtc ccgccctgaa
     3961 catcccggat atagtttgcc tgacatgcag ccagaataat gactgcaaga agcaataaaa
     4021 taatccctgt tatttttttc ataacgactc cttgttgtga aagaatgcca gccattcatc
     4081 cataaacaac cggcattcat attttagccc tgtttaaatc ctggcttacc gttagcagct
     4141 cgccattctt taatttcttt aacaatccct tcaggactat cttccctgtc atcgcgagga
     4201 taataaatca gatctgaacc atctgggtgc tcagttaatc gctcaaactc tctcactaat
     4261 ttattgtcat cctcttcagt agcaccttca gctctacata ttttttttac aaactccaga
     4321 aattcagcct cggtataatc actaatacta tgtttcagtt ccatttttac ttacctctat
     4381 gaatatcaat atgtcgctta ggtgtggtca ctctgatatt atccatatca tagacaccac
     4441 catcctgact gattggttta tcatgatgta attcaaagcg ttccctacca cctacttggt
     4501 ctttcttcct tgcaaaaggt gcttttccct tttgaatgtt cgtcttatta ctgtctttaa
     4561 attgcttact aagctcggga tcttttgaca cttcttccca gaatttcttc cggaaatcgt
     4621 caaaactttt aaattcttta tcacgcaact tatcagcaat gcgatcagga attggagctc
     4681 ctgaatcttt acccgcatca tcaagccatt tatcaccaac tggttttcct ttacccgtcg
     4741 ccttccctgg cttattccgt ttactctcct tatctaattt atccttagag tccttttctt
     4801 tattttcctt ctgcttacgg cgttccagcg cagcacctaa cgcagcatca gcatcagact
     4861 tatcttttgc agcagcatca aatgcagcct tcttattatt tacatccgtc tgtgcccgct
     4921 gggccttaag ccctgccatt tgccacattc ggtgaccagc agccattggt tctcgggcaa
     4981 atcgctcgaa ttgttttatt tcagcctttg catcagcaag agttttattc gctgcatcaa
     5041 gttcactttt acgagaatta taaacctgaa cagctttagc ctgtcgttcc tggtttctgg
     5101 caacatcttt attagcctga tccagttctg cgcgggcctg ttcataattg cgttcagcca
     5161 cttctacagg atgtgtgtca ttccattcct gctggaggcg attttcctca tcctgacgtt
     5221 gttttacctg tgcaggggta agaacatctg tcactgatac ataaatcggc ttctgcccac
     5281 tttctttcgg gaaacggatc accgcttcat gtgaaccacc accaaaggta aatcctgcag
     5341 gaacggcagt ccggccctta tcctccgtaa taccacgggg aaggtttgtt gacacaggaa
     5401 gacctttgac cgtgctgact gtcagagaag ggacaccagg aaatgatgcg tgaaatacac
     5461 ctggggtacg tgttggttta gcattcacaa caggcacact cataggtaca cctgcaacta
     5521 cggcaatatg ctgtcgtgtg tccttcacaa catcggtcac acgttttgtc acgctaacag
     5581 ttgcctggtc cagcggaagt gtactgacct gaacatttgt tactgtttct gccggtaatg
     5641 acgtcacaat ctttgacatc attttcgggt catcttttgc tatttcagat ggcagaatgc
     5701 cgtaaagcgc aataccccat gcactgaatt taaacggacc tttcagggct gcaaagatat
     5761 ccgctattgc cgcagataaa gcctcaccag agacggcgat acccagtgtt ccggcaccag
     5821 gagctgccaa agcaggaaaa ccaaatgcca ctgctgctac ggatgaattg ctgccaccac
     5881 cggaattacc attccccccg ccattgccat ggccggagcc acctccccag tgaacaccac
     5941 taccagaacc gccaccccat gggttatttt ccgaactcca tccggagccg tcagaagccc
     6001 caccatttcc accaagcccc gtagggccgc cattaatgtt accacctgtg ttatgtgcgc
     6061 cactgttgtg gtcgcgtc
//
