LOCUS       NZ_CP009169             4671 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli 1303 plasmid p1303_5, complete sequence.
ACCESSION   NZ_CP009169
VERSION     NZ_CP009169.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02949643
            Assembly: GCF_000829985.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli 1303
  ORGANISM  Escherichia coli 1303
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4671)
  AUTHORS   Johnson,S.L., Baker,A.L., Chain,P.S., Currie,B.J., Daligault,H.E.,
            Davenport,K.W., Davis,C.B., Inglis,T.J., Kaestli,M., Koren,S.,
            Mayo,M., Merritt,A.J., Price,E.P., Sarovich,D.S., Warner,J. and
            Rosovitz,M.J.
  TITLE     Whole-Genome Sequences of 80 Environmental and Clinical Isolates of
            Burkholderia pseudomallei
  JOURNAL   Genome Announc 3 (1), e01282-14 (2015)
   PUBMED   25676747
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4671)
  AUTHORS   Leimbach,A., Poehlein,A., Daniel,R. and Dobrindt,U.
  TITLE     Complete genome sequences of Escherichia coli strains 1303 and
            ECC-1470 isolated from bovine mastitis
  JOURNAL   Unpublished
REFERENCE   3  (bases 1 to 4671)
  AUTHORS   Leimbach,A., Poehlein,A., Daniel,R. and Dobrindt,U.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-DEC-2014) Institute for Hygiene, University of
            Muenster, Mendelstrasse 7, Muenster, North Rhine-Westphalia 48149,
            Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Newbler v. 2.0.00.20; MIRA v. 3.4.0.1
            Genome Coverage                   :: 95x
            Sequencing Technology :: Sanger dideoxy sequencing; 454; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000829985.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 03:55:46
            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)                     :: 4,998
            CDSs (total)                      :: 4,874
            Genes (coding)                    :: 4,682
            CDSs (with protein)               :: 4,682
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 192
            CDSs (without protein)            :: 192
            Pseudo Genes (ambiguous residues) :: 0 of 192
            Pseudo Genes (frameshifted)       :: 74 of 192
            Pseudo Genes (incomplete)         :: 122 of 192
            Pseudo Genes (internal stop)      :: 52 of 192
            Pseudo Genes (multiple problems)  :: 48 of 192
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP009169.1.
            Bacteria available from Dr. Ulrich Dobrindt, Institute of Hygiene,
            University of Muenster, email to: ulrich.dobrindt@ukmuenster.de.
            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..4671
                     /organism="Escherichia coli 1303"
                     /mol_type="genomic DNA"
                     /strain="1303"
                     /serotype="O70:H32"
                     /isolation_source="udder acute mastitis"
                     /host="Bos taurus"
                     /db_xref="taxon:745156"
                     /plasmid="p1303_5"
                     /geo_loc_name="Germany: Hannover"
                     /collection_date="2002"
     gene            101..292
                     /locus_tag="EC1303_RS25495"
                     /old_locus_tag="EC1303_5p00010"
     CDS             101..292
                     /locus_tag="EC1303_RS25495"
                     /old_locus_tag="EC1303_5p00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165987.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            934..1065
                     /locus_tag="EC1303_RS29830"
     CDS             934..1065
                     /locus_tag="EC1303_RS29830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001422066.1"
                     /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_071594641.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLAAATGRGCTRNC"
                     /name="replication initiation protein"
     gene            complement(1278..1409)
                     /locus_tag="EC1303_RS27925"
     CDS             complement(1278..1409)
                     /locus_tag="EC1303_RS27925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001368419.1"
                     /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_071525901.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(1421..1900)
                     /locus_tag="EC1303_RS25500"
                     /old_locus_tag="EC1303_5p00020"
     CDS             complement(1421..1900)
                     /locus_tag="EC1303_RS25500"
                     /old_locus_tag="EC1303_5p00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001485345.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000595942.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            complement(1983..2741)
                     /locus_tag="EC1303_RS25505"
                     /old_locus_tag="EC1303_5p00030"
     CDS             complement(1983..2741)
                     /locus_tag="EC1303_RS25505"
                     /old_locus_tag="EC1303_5p00030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001555316.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001555316.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            3013..3432
                     /locus_tag="EC1303_RS25515"
                     /old_locus_tag="EC1303_5p00040"
     CDS             3013..3432
                     /locus_tag="EC1303_RS25515"
                     /old_locus_tag="EC1303_5p00040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000312322.1"
                     /translation="MAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRREFETSE
                     LIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQAQDTERR
                     RQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="hypothetical protein"
     gene            3513..3941
                     /locus_tag="EC1303_RS25520"
                     /old_locus_tag="EC1303_5p00050"
     CDS             3513..3941
                     /locus_tag="EC1303_RS25520"
                     /old_locus_tag="EC1303_5p00050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000830439.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WP_000830439.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     Typing          459..1006
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gcccctgact aaccgctcac tcagctttat cactctcgcc tgcgtcacag ttatcatgct
       61 cccatgaaca gaaattccct tacacggaga catcagacca gtgaccaaac aggaaaaaac
      121 cgccctgaac atggcccgct tcatcagaag ccagacatta accctgctgg agaagctcaa
      181 cgaactggac gcggatgaac aggcagacat ctgtgaatcg cttcacgacc acgccgatga
      241 gctttaccgc agttgcctcg cacgtttcgg ggatgacggt gaaaccctct gacatatgca
      301 gctcccggag acggtcacag cttgtctgtg agcgaatgcc gggagcagac aagcccgtca
      361 gggcgcgtca gcgggtttta gcgggtgtcg gggcgcagcc atgacccagt cacgtagcga
      421 tagcggagtg tatactggct taatcatgcg gcatgtccgg tgtgaaatgc cgcacagatg
      481 cgtaaggaga aaatgccagt ataggcgctc ttccgcttcc tcgctcactg actcgctacg
      541 ctcggtcgtt cggctgcggc gagcggtgtc tactcactca aaagctgtaa tacagttatc
      601 cacagaatca ggggataatg ccggaaagaa catgtgagca aaaaggcaaa accagggcaa
      661 aaggccgcgc cgctggcgtt tttccatagg ctccgccccc ctgacgagca tcacaaaaat
      721 tgacgctcaa gtcagaggtg gcgaaacccg acaggactat aaagatacca ggcgtttccc
      781 cctggaagct ccctcgtgcg ctctcctgtt ccgaccctgc cacttaccgg atacctgtcc
      841 gcctttctcc cttcgggaag cgtggcgctt tctcatagct cacgctgttg gtatctcggc
      901 ttggtgtagg tcgttcgctc caagctgggc tgtgtgcacg aaccccccgt tcagcccgac
      961 cgctgcgcct tatccggtaa ctatcgtctt gagtccaacc cggtaagaca cgacttaacg
     1021 ccactggcag cagccactgg tagaggatgt acaagaaatt gctgatacgt agttcttgaa
     1081 gtgaaggacc gactgcggct acactgaaag gacagatttg gtggcagcgg tcttgtacac
     1141 cctgttacct cgggttagaa agcctgagaa acttctaacc ttcgaaagaa cccacgcctg
     1201 agaacgtggg ttttttcgtt tacaggcagc agattacgcg tagaaaaaaa ggatctcaag
     1261 aagatccttt aatcttttta cctaatttcg attccagtag ctgctgagct agaagatggc
     1321 gcaacagtcc ctccttgaac atccctgata taatttgcct gacagccggg caatattaaa
     1381 attagcgcac aaaaaaccaa accacgcata gaattgtatt ttatctcccc ataacaatga
     1441 tcatatcaat tgataacaaa ccatttgact ttattttctc aggaaataaa agtgacggat
     1501 cgttatcaac aatactttgt atttctctat acagtttttt acagtctaat gatgagtttt
     1561 ccgccaatga gtttaacaaa acaacatctg gaggctcaat atctttaaca cctgtacttc
     1621 ctgttgttat cgataattta caaactccct tcccattaaa gttaattagt tttttctgga
     1681 tataatctcg atatacccct aactccttcc taataggttc tacatatgct tgatcgatga
     1741 catggttatt actatttata tcatcaatat atttatatat ctcattaact gaatctgtat
     1801 tcctttccca acttggagca atgaatactg ttacagatgc ataagcacct tctgataaga
     1861 acaataaagc aacatataag aataataacc gcttgatcat ataatccatt cccattatag
     1921 gttgatgtat ttcatcttta atataagatg aaatacatct catatctata tgttatggtc
     1981 tattaatgtt tatcccgcaa ctgatctgct gtatccttgt ttctctgatc gcctcgttga
     2041 tgaagatttc gatggctttc acgtgctgca gactcccaat ccccacggtt cacagcagca
     2101 ttaaagttcg gaaagtttct cgatagctta ggaattccta agttaaatcc catatccact
     2161 aaggcagttt ttctagagtt agaaaaacca tcataaccag aatataaaga acgcaagcct
     2221 ttctctgtag tctgaacatc ggaaatacat aatccaataa cagcatcatt tgataaatgc
     2281 aagttcattg gtacttgtct agagtctttt ttaaagttat taaaagcatc ggttatttct
     2341 ttttttgatg ctgcaacttc tttttccata tcatcaccat gaccatgcca tgtatgagtt
     2401 cttgtaaaag ggagagatgc cgccatatct ggcgtagata gcaaatgacc aataccaaca
     2461 gtaatattac cttcgctatc cttatacatg gtgtttttga acccctcatg ggcttttaaa
     2521 ttattaacac acatgctcat atagtagcca ttatagtttc tggtagatgg tatactaata
     2581 tgtgtcttat cagaaatacc ttcatggcga tttcccccat taccaccaga atgagcacca
     2641 taaccgctat ggctgtcccc atcataacta tgaattgttc catagggagt attgtgatca
     2701 tgccaccccg gaccttgatt agaattttca ataccactca tcttaatttc ctctttgaca
     2761 tttaaaacaa cgatcaatac aactgtatat ataaccacta gttttatata cagtttaaaa
     2821 ttacgccgct gcgttttccc tgtcaaccct gtggattttc atttttgtga aaacggtcaa
     2881 aaaaacagcc actcacacca tgtgccatcc ccgccagatg ccacaaaaac cagcacaaac
     2941 attaccgttc tccggcctca gtatgtttta ctgagaccat gagatgagac acctatggga
     3001 cactgtcact ttatggcatg gcacacactc cgggacgcac tgaaaatgac gggcagatcg
     3061 cgttcacagt tttaccgtga tatgcgcgca ggccttgtca gttaccgtac aagccaggac
     3121 ggacgacggg agtttgaaac tagtgaactg atccgggcat acggcgaatt aaagcggaat
     3181 gagacaccag aaaggcacac agcgggacag gcagaaaaac ctcatgatca gcagacagaa
     3241 cgcattctcc gggagctgaa cgagctgaaa caatgcctga cgctgatgct tgaggataaa
     3301 caagcccagg atacggagcg ccggcgccag gaagcagaac gggaacaact acagaatgag
     3361 atagcccagc tcaggcaggc gctggagcag gaaaggaaac ggggattctg gtcccggttg
     3421 tttggtcgct gaacgctgtc agagactgat gataagatag tcttctgata ataactcacc
     3481 gaaaataaat acattaaggt aaggagactc gcatgaaacg ttctggcggc acacgctata
     3541 tgtatcttag cgccctgata actgtgtcag cagccctcac agcctgtacc ccaaaaacca
     3601 gcctggaaca acatacccgg cattatgttt atgcttcaga tgatgggttc gatcctaact
     3661 tctacaccaa gaaagctgac accacacgga tgatgattcc gttctttcag cagttcaggg
     3721 agatgggggt gaaagacaaa gcagccggag tatcagcaga aacggcacag caacgcataa
     3781 aagaattcca ctctgaagaa ttccttcagt cactgagaac cacaaccacc tttgcgggca
     3841 gaaaatacac gaacagtgat atgccatcac cggaaaaaat gaagctgctg gctgacacga
     3901 tttctgcgat ttatctcgat ggctacgagg gaagacagta agtggattta ccataatccc
     3961 ttaattgtac gcaccattaa aacgcgttga gcgcgattct gacgcaggca cagcaaaaag
     4021 aaatgtttac ccccaggaaa accggaaaaa tgcgtcagga tcgttttcag ggcgttgcat
     4081 gactatgcac gaaactgaat agcgatctgt ttgggcgcat acggtgccca tgaggcacat
     4141 tttcggacat tttcagttcg tgaatccctg gctcattgct acatatccgg gcagacaccc
     4201 ctggcagcgc ccccaggggt gttatgtaaa aaaaggcgac gcgcccctag gggcgcccct
     4261 acattaatta actgtttttt ctacagatag tcagtactga ccctaagcag ggtcgtcata
     4321 gcgtcgccat agggtcgtcg acgacgtgct tttgtataaa tctgaataag aaaatacatt
     4381 tttaaaacca taacaacatg atttaaaaag caaatcagca aaaagttggt tttgcgtggg
     4441 gtgtggacat ttcagacatg agaacagact cgcgtttttc cggagtatca gcggaatatc
     4501 tgattaaaaa acactcgccg cagagcgcga ttttatgcaa cagcggctgt actgcacagg
     4561 gattatttat cagttgatat gctgtgccat gatattgcta ttgccgaaag ggacgtcgtt
     4621 ttacggcgtt ttccctatcc tgcatcgcac tggccgcgtt cgaatgtttg c
//
