LOCUS       NC_013719               3910 bp    DNA     circular CON 07-FEB-2024
DEFINITION  Citrobacter rodentium ICC168 plasmid pCROD3, complete sequence.
ACCESSION   NC_013719
VERSION     NC_013719.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA2272524
            Assembly: GCF_000027085.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter rodentium ICC168
  ORGANISM  Citrobacter rodentium ICC168
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter.
REFERENCE   1
  AUTHORS   Petty,N.K., Bulgin,R., Crepin,V.F., Cerdeno-Tarraga,A.M.,
            Schroeder,G.N., Quail,M.A., Lennard,N., Corton,C., Barron,A.,
            Clark,L., Toribio,A.L., Parkhill,J., Dougan,G., Frankel,G. and
            Thomson,N.R.
  TITLE     The Citrobacter rodentium genome sequence reveals convergent
            evolution with human pathogenic Escherichia coli
  JOURNAL   J Bacteriol 192 (2), 525-538 (2010)
   PUBMED   19897651
REFERENCE   2  (bases 1 to 3910)
  AUTHORS   Petty,N.K.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-AUG-2009) Petty N.K., Pathogen Genomics, Sanger
            Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA, UNITED
            KINGDOM
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/07/2024 01:23:03
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,208
            CDSs (total)                      :: 5,094
            Genes (coding)                    :: 4,850
            CDSs (with protein)               :: 4,850
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 244
            CDSs (without protein)            :: 244
            Pseudo Genes (ambiguous residues) :: 0 of 244
            Pseudo Genes (frameshifted)       :: 114 of 244
            Pseudo Genes (incomplete)         :: 143 of 244
            Pseudo Genes (internal stop)      :: 64 of 244
            Pseudo Genes (multiple problems)  :: 66 of 244
            Pseudo Genes (short protein)      :: 1 of 244
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            FN543505.1.
            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..3910
                     /organism="Citrobacter rodentium ICC168"
                     /mol_type="genomic DNA"
                     /strain="ICC168"
                     /db_xref="taxon:637910"
                     /plasmid="pCROD3"
     gene            67..1623
                     /locus_tag="ROD_RS25515"
                     /old_locus_tag="ROD_p301"
     CDS             67..1623
                     /locus_tag="ROD_RS25515"
                     /old_locus_tag="ROD_p301"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001624483.1"
                     /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_012908960.1"
                     /translation="MASYHCTVKAGAKGSALKHANYISRSGEYKSYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPSGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKASI
                     PQTAGERKAALVALRSRWADVQNEHLARYGHESRVDHRSLKEQGINRTPEVHLGPVQAA
                     SLNGEQIVAIQERRNAERELKTARDAANAIQQEQEQKQKIKAVEPVRSACSPELLLQYR
                     KVMKTVIQGEERLARLGDANPNALKEHKLLQNAKAKNESLSEWSRRIHEGTRYLDKLGR
                     DVISAQRELRELQEQRNALNGIRGLFRGADKREIDARILEQESVLETAEREENEFRYKL
                     QQAESEWKEKYAAFQRTEGYKYVDPTGLDKYREREILAAVSLENTRQKVAEEISVARSQ
                     MLSLEPELNMSGDEKAQMRHELLAEMALEQQQQEEKALRIQQTWVREASRSNERDQDME
                     R"
                     /name="MobA/MobL family protein"
     gene            2079..3098
                     /locus_tag="ROD_RS25520"
                     /old_locus_tag="ROD_p311"
     CDS             2079..3098
                     /locus_tag="ROD_RS25520"
                     /old_locus_tag="ROD_p311"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /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_012908961.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELAAYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(3359..3805)
                     /locus_tag="ROD_RS25525"
                     /old_locus_tag="ROD_p321"
     CDS             complement(3359..3805)
                     /locus_tag="ROD_RS25525"
                     /old_locus_tag="ROD_p321"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_021537414.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWEKRGKELLAKDSA"
                     /name="conjugal transfer protein TraD"
     Typing          2080..2854
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          68..1620
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgcgcactta gtagtttctc tccttcgtcg agaaactgtg cgctcctgcg gagggctaaa
       61 aggcagatgg caagctacca ttgcactgtc aaagctggag caaaaggcag tgccttaaaa
      121 catgctaatt acatttccag atccggcgaa tataagagct acaaatcgcg ggaggatctg
      181 gaattttcgt catccggtaa catgccatca tgggcgaaga aaaatcccgc agagctatgg
      241 aaagccgcag atgaatttga acgaaaaaac gggactgcgt accgtgaaat tgagatcgcg
      301 ttaccgcgtg aactgacacg cgaacaacgg atagaacttg ttgaagattt cgtgcaaaag
      361 gaacttggcg atcgccatgc ctaccagtac gcgatccaca atccgtcagg tgcaatcgac
      421 ggaaaggaac agccacacgc gcatatcatg ttttgcgagc ggattaatga tggtattgaa
      481 cgcgatccgc agcaattttt taaacgtgcc aacagcaaat caccagaacg gggaggcgca
      541 aaaaaagcga gtattcccca gacagccgga gagcgaaaag ccgcccttgt tgcgctgcgt
      601 tcccgctggg cagatgtgca gaatgagcac cttgcgcgat acggtcacga gtcgcgcgta
      661 gatcatcgtt ctctgaaaga acagggtatc aatcgcacgc cggaagttca tcttggcccc
      721 gttcaggccg ccagtctcaa tggtgagcag attgttgcaa tccaggaacg gaggaatgct
      781 gagcgggaac tcaagaccgc cagagatgcc gcaaatgcca ttcagcagga acaggagcaa
      841 aagcaaaaaa tcaaggcagt tgagcctgtt cgttcagcct gttcaccgga gttattgctt
      901 cagtaccgca aggttatgaa aacggtcatt cagggagagg aaaggcttgc tcgtttaggg
      961 gatgccaatc ccaatgcgct caaagaacat aagctgcttc agaatgcgaa agctaaaaac
     1021 gaatctcttt ccgaatggag tagacgaata catgaaggga ctcggtattt agacaaactt
     1081 gggcgtgatg ttatttccgc acaaagggag ctacgagagt tacaggaaca acgcaatgct
     1141 ctgaatggga ttcgtggcct gtttcggggg gctgacaaaa gggagattga tgcgcgtatt
     1201 ctggagcaag aaagcgtgct ggaaaccgcc gaacgtgaag agaatgagtt caggtacaag
     1261 ctacagcaag ctgagtccga gtggaaagag aaatacgctg cttttcagcg taccgaggga
     1321 tataagtacg ttgatcctac ggggctggac aagtacagag aacgtgagat tctggccgca
     1381 gtctctttag agaacaccag gcaaaaagtt gccgaagaaa tatccgttgc ccgtagccag
     1441 atgttatctc tggagcctga acttaatatg tctggagatg aaaaagctca aatgcgacat
     1501 gagttactgg cagaaatggc gttggaacag cagcaacagg aagaaaaagc gctgcgtata
     1561 cagcaaacct gggtcagaga ggcatctcgt agtaacgaac gtgatcaaga tatggagcgt
     1621 tgaaaatgta gcaatatcgg gactgcgccc cgaaccccgc caacgtttca cggaacgcga
     1681 aaaaattccg cgtcccgttc accgttttct gatgagaaag tttgctgttt tgacccgttc
     1741 gcccttctga acgctcgaaa cagatcgcgc attgctttcg tgaatagtta tgcagcctcc
     1801 taaaaacaat tctgccgcgt ttttctggtt cttcctggtg tttccttgta tttctgcgtt
     1861 ttttgcgtca gaaagcgtct gagagcgttt taaggggggc gcacaacggg agttatggta
     1921 aatggatcgg ttttgcggga aggctcgaca ggttttgttg ttgggggtag tgtaagcgac
     1981 tgaaaaacaa acgcccctga aattcgtgtc tctccgccaa gattgtcacg agaatacagg
     2041 ggcgaggtcg gtcgataacc tagaaggaat cgtaacacat gagcgccgcg cttcaatact
     2101 tcgaagaaaa tttaccccac cgcccctatc acacggatga tctcgctttc ggccttcgca
     2161 tctccggcaa agggcgtgcg cttcttgcgc ggtacatcca gcagaaccag cctcatgcgc
     2221 agttctggct ggtttttgac gttgaccgcg agggggctgc gattgactgg agcgaccgga
     2281 acgcccccgc gccgaacatc accgttaaaa atcctgtgaa cggacacgct cacctgctct
     2341 acgcactcaa catcgccgtg agaaccgcgc ctgatgcctc ggttaaggcg ctgaaatatg
     2401 ccgcagcggt tgaacgttcg ctgtgtgaga aactttgtgc tgatgtgaac tacagcggcc
     2461 tgatttgcaa aaatccgttc cacctggaat ggcaggtgat ggagtggcgc gaggacgcct
     2521 ataccctcga tgaactggca gcttatctcg atttgagcgc ctcagagcgt cgtagcatcg
     2581 ataaacatta cgggatgggg cgaaactgcc acctgttcga aatgacgcgc aaatgggctt
     2641 acagggcgat tcgtcagggc tggccagcgt tctcacagtg gcttgaagcg gtgatccagc
     2701 gtgtcgaaat gtacaatgca tcgcttcccg ttccgctttc actggctgaa tgtcgggcta
     2761 ttggcaagag cattgcgaaa tacacgcaca ggaacttcac gccggaaact ttcgcacagt
     2821 atgtggctga tacgcacacg ccagaaattc aggcagcacg cggtcgcaag ggcgggaagg
     2881 ccaattcgtc agaaaatcag tcggacaaag ggaaaaaaag cgccgctgtt cggtggactg
     2941 ctaacgacga caaacgtcgt agggcgcttg atatgtatat cttgggagcg tcaacggaag
     3001 atattgcagt ggcggttggt gttagcagcc ggactattcg acgctggatg gataattctg
     3061 gagaatggct aaccaagaaa caaataatta aatgttagtt aacaaagaag caacaatacc
     3121 ccccgttttt tgttaatggt tggttaaatt cgcggacatg aacaagccta tatcagataa
     3181 cagcgccttt cggcgtcttt ttgagcagcg ggctttccgg cggttttctc ctctcagccc
     3241 agcaatggtg cggcttaccg catgattgag gtggtcgtgc tcgccgcagt ctcatgaccg
     3301 agcgtagcga gcgaatgagc gaggaagcac cagggaaccg gaacgtgaac ggaggctctt
     3361 acgcactgtc tttggcgagt agctctttcc cgcgtttttc ccattcctgc catttgggat
     3421 ggttgcgcgg tagctctgcg attcctgcga gtgcgcctac cagttcggca gcactaaact
     3481 ttggttttcc ggttttgctg tccaccagtc ctgccacaat catgaggcct gcggccttgt
     3541 aaagttcatg atcccgcgcc tttcgttctg cccttgcggc tgccttccgt tctgccgcta
     3601 tgattgccgt taccctggct tttgctgcgg ctgctttctc tgcggttttt tctgcccgta
     3661 tcagtgcgga caacgttttt tcatccgtcg ttgttcggtt ttttttctct gccagtaaca
     3721 caagtaatct ctgctgctct gacggtgatt tcagtccgtt gatgtaggca atttttgcac
     3781 ttaaccactc ttcacgattt gtcattctta cctctgcact tttgccgtta atgtgagttg
     3841 ttattgtgca taatatcacc ttgtctgcct gcgtgtgaga ccgtaaaatc atccctgatt
     3901 aattcaggga
//
