LOCUS       NZ_CP030792             4231 bp    DNA     circular CON 05-MAR-2024
DEFINITION  Escherichia coli APEC O2-211 plasmid pAPEC-O2-211B, complete
            sequence.
ACCESSION   NZ_CP030792
VERSION     NZ_CP030792.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03761814
            Assembly: GCF_001021635.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli APEC O2-211
  ORGANISM  Escherichia coli APEC O2-211
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4231)
  AUTHORS   Nielsen,D.W., Mangiamele,P., Ricker,N., Barbieri,N.L., Allen,H.K.,
            Nolan,L.K. and Logue,C.M.
  TITLE     Complete Genome Sequence of Avian Pathogenic Escherichia coli Strain
            APEC O2-211
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4231)
  AUTHORS   Nielsen,D.W., Logue,C.M. and Nolan,L.K.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-JUN-2018) Population Health, University of Georgia,
            501 D.W. Brooks Drive, Athens, GA 30602, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 18-APR-2018
            Assembly Method                   :: Canu v. 1.5
            Assembly Name                     :: APEC O2-211
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 344.0x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/05/2024 04:28:40
            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)                     :: 5,228
            CDSs (total)                      :: 5,112
            Genes (coding)                    :: 4,849
            CDSs (with protein)               :: 4,849
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 263
            CDSs (without protein)            :: 263
            Pseudo Genes (ambiguous residues) :: 1 of 263
            Pseudo Genes (frameshifted)       :: 108 of 263
            Pseudo Genes (incomplete)         :: 173 of 263
            Pseudo Genes (internal stop)      :: 58 of 263
            Pseudo Genes (multiple problems)  :: 70 of 263
            Pseudo Genes (short protein)      :: 5 of 263
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP030792.1.
            Bacteria and source DNA available from Catherine Logue.
            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..4231
                     /organism="Escherichia coli APEC O2-211"
                     /mol_type="genomic DNA"
                     /strain="APEC O2-211"
                     /isolation_source="Air sac"
                     /host="Gallus gallus"
                     /db_xref="taxon:1954351"
                     /plasmid="pAPEC-O2-211B"
                     /geo_loc_name="USA: Delaware"
                     /collection_date="1982"
                     /serogroup="O2"
     gene            complement(470..1537)
                     /locus_tag="APECO2_RS27800"
                     /old_locus_tag="APECO2_28900"
     CDS             complement(470..1537)
                     /locus_tag="APECO2_RS27800"
                     /old_locus_tag="APECO2_28900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015874993.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretion system protein"
                     /protein_id="WP_099112169.1"
                     /translation="MSGGIFEGVEKNLIGGLTNVAQGQMMIYSNMMMGLAVMSATIYII
                     WRGYQTLAGKLSTPVEDTMWDIMRMAIILSFVANLDGYLDGVIDAINGLKEGFSGGDNI
                     WRMLDSLWQNAKFLGKTLHDLDDSEFIKDEGTIAELFVWGGTFALMIVTAFVSMVAEIT
                     IMLLSVTAPIFIFCLMYGFLRPMFNNWLQNIFAAILTILFSALSLRIVIIYTDSVMTTA
                     IDGAARANIVQLGAQVCLSGICAAILVYISARIASALAGASATATMQGAAAIGIGAAAY
                     GVGKMAGGAKDKLEKNIDGWNAHDDGAKRAPKGGALGYNAAKARKYAIEQMIARNEARE
                     IARSREEAIKKYGAK"
                     /name="type IV secretion system protein"
     gene            complement(1539..1817)
                     /locus_tag="APECO2_RS27805"
                     /old_locus_tag="APECO2_28905"
     CDS             complement(1539..1817)
                     /locus_tag="APECO2_RS27805"
                     /old_locus_tag="APECO2_28905"
                     /inference="COORDINATES: protein motif:HMM:NF033894.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EexN family lipoprotein"
                     /protein_id="WP_000712866.1"
                     /translation="MKKFATIASALIICFSITGCDNKTSVDWYMKHHEDMFSKYTECLL
                     ADSWHEVSCQNARSAMNLEKEKPDVQDGLAAAREKLIERNRNLMGHK"
                     /name="EexN family lipoprotein"
     gene            complement(1877..2101)
                     /locus_tag="APECO2_RS27810"
                     /old_locus_tag="APECO2_28910"
     CDS             complement(1877..2101)
                     /locus_tag="APECO2_RS27810"
                     /old_locus_tag="APECO2_28910"
                     /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_000774616.1"
                     /translation="MADMKTTTQTRVIDLEILEEVITRAEFAHSLAGLITESANFKKLS
                     EHQQNALMALMTFTYDVKNAISELMNSAE"
                     /name="hypothetical protein"
     gene            complement(2181..3149)
                     /locus_tag="APECO2_RS27815"
                     /old_locus_tag="APECO2_28915"
     CDS             complement(2181..3149)
                     /locus_tag="APECO2_RS27815"
                     /old_locus_tag="APECO2_28915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001287825.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001421742.1"
                     /translation="MSEDKFLSEYSPKDSVWDSHRAFTDSVGGIYRSAAEFERYAERMA
                     SCSGLLRFGWSTLMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVAQ
                     FPSSRWLFLTLTVRNCEIGILGDTLTLMNAAFKRMEKRKELAPLQGWIRATEVTRGKDG
                     SAHPHFHCLLMVPPSWFSGVAYVKQARWVELWRDCLRVNYEPNVDIRTVKMKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPDWFLELTRQLHKRRFISTGGALKNILQLDRETN
                     EDLVIADEMGDGTDDGKRTAFVWDSGRRRYRRAPEKDRFDN"
                     /name="protein rep"
ORIGIN
        1 ccccgtgtgg cgcgaagttc gggcgttcag ccggaacgaa gcaccacggg ttttcatgcc
       61 gttaatgggg tacagaaatg gggtgcactg atggggtaca tagcgtgctc tattgctgca
      121 ccccatcgtt gtaccccatc aacacaaaca aacatcgatg ggagcatatt atgggaacgg
      181 ggctatgctc ttataagcta ctcccatata ctgatcatat aaataaaaaa gcctccgaaa
      241 aaaataactc aaggaggctt ttaaatgatg tttgtttatt tattcaagag cattgcaatc
      301 tggattgata taaataaaac gataaccata atcagcgttc tttttcgtaa tgagtaatta
      361 ttaaaaacag gaaacatttt gctcacaaca acatactgaa taattaaaac gctaccaaat
      421 gcaatgattg aaaatatagc aaatgagaat atacggattg taatttccat tatttagctc
      481 cgtatttttt tatagcctct tccctagacc gagcaatttc tcgcgcttcg ttcctagcaa
      541 tcatctgctc aatcgcgtat ttacgagcct tggcggcgtt ataacctaat gctccacctt
      601 tgggcgctct tttggcacca tcatcatggg cgttccagcc atcaatgttt ttttccagtt
      661 tgtctttggc accgccagcc atttttccaa caccgtatgc agcagcgcca ataccgatag
      721 ccgccgcccc ctgcatagtg gctgtagcac tcgctcctgc cagtgcagaa gcaattcttg
      781 cagagatata caccaatatt gccgcacaaa taccagacaa gcatacctgg gcaccaagtt
      841 gaacaatatt cgccctcgca gcaccgtcta tagcggttgt cattactgaa tctgtataaa
      901 taataacaat cctcagagaa agcgcagaga acaagatagt cagtattgct gcgaaaatgt
      961 tctgtaacca gttgttaaac atagggcgaa ggaaaccata catcaggcaa aagatgaata
     1021 tgggcgcagt gacactgagt aacataatcg tgatttcagc aaccattgat acaaaagccg
     1081 ttacaatcat cagcgcaaaa gtaccacccc atacaaacaa ttcagcaatt gtgccctcat
     1141 ctttaataaa ttctgaatca tccaaatcat gtaatgtttt tcccaagaat tttgcgtttt
     1201 gccagagact atctaacatc cgccaaatgt tatcacctcc agaaaagccc tctttcagtc
     1261 cgttaatggc atcaatcacg ccatcaagat aaccgtccaa attagccaca aaggacagga
     1321 tgatcgccat cctcataatg tcccacattg tgtcttccac tggcgtggag agcttgccag
     1381 ctaaggtctg gtatcctcgc catatgatgt agattgtagc tgacattacc gccagcccca
     1441 tcatcatatt ggagtagatc atcatttgcc cttgagctac attagtcagc ccaccgataa
     1501 ggttcttttc aactccttca aaaatacctc cgctcatatc atttgtgccc catcagatta
     1561 cgattacgtt caatgagctt ctcgcgtgca gcagcaagcc catcttgtac atccggtttt
     1621 tccttctcaa gattcattgc acttctagcg ttctggcaac taacttcatg ccatgagtca
     1681 gcaagaagac attcggtata tttagaaaac atgtcctcat ggtgtttcat ataccagtca
     1741 acagaagttt tattgtcaca tccagttatt gaaaaacaaa taatcaaagc agaagcgata
     1801 gtggcaaatt ttttcatgat taacattcct gtgttaatta ttgagactca atgatattga
     1861 gtctcatata ttaagatcac tcggctgagt tcattaattc agatatagca tttttgacat
     1921 catacgtaaa agtcattaat gccattagcg cgttctgttg atgctctgaa agttttttaa
     1981 aattagcgga ttcagtaatt aatccagcca gactatgcgc aaattctgcg cgagtgatga
     2041 cctcctcaag gatctcgaga tcgattacac gggtctgtgt ggtagtcttc atgtcagcca
     2101 ttacagcctc ctaatcaggt tgtgtggtta gcggtctgtc ggaaggtgag agcttcggca
     2161 ggccgcgcaa aatccgatac tcagttatcg aatctatctt tctccggggc gcgcctgtaa
     2221 cggcgcctcc cggaatccca aacaaacgca gtacgtttgc catcatctgt gccatccccc
     2281 atttcatcgg caatgaccag atcctcattg gtttccctgt caagctgcaa aatgttctta
     2341 agtgccccac ctgtcgaaat gaaacgacgc ttatgaagct gccgcgtcaa ttcaagaaac
     2401 caatcaggat cgttagccat atcttccggt ttaacagaat atttcagggt ttcagcaacg
     2461 gcactctgta gctgttccgc aacgttggcc actacttcgc ctgttttcat cttcacagtc
     2521 ctaatatcaa cgttcggttc gtaattcacc cgtagacaat ctcgccatag ctccacccaa
     2581 cgagcttgtt tgacataagc aacaccagag aaccatgatg gaggcaccat cagcaaacag
     2641 tgaaagtgcg gatgtgcact accatctttt ccccgagtta cttcagtcgc tctaatccat
     2701 ccttggagag gagcaagttc tttacgcttc tccatacgtt taaatgcggc attcattagt
     2761 gtcagagtat cccctaaaat ccctatttca cagttcctga cagttaacgt caggaacaac
     2821 cagcgcgaac tgggaaattg agcaacaatt tttggaagag cctggtaaaa acgggcttgc
     2881 cacatgagcg ttcttctcca ctggcagaca ggacaatgac ggacacggca gaattgcgca
     2941 ctacgaagcc ttaagcgcgt ctctccagtt tccatgagcg tagaccaacc aaaacgcaat
     3001 aaaccgctac aggaggccat acgctctgca taacgctcaa attcagcagc actccggtaa
     3061 ataccaccga cagaatcagt aaacgcacga tgtgagtccc aaaccgaatc tttcgggctg
     3121 tactccgaca ggaatttatc ttctgacatg ccacctgctc cgatctgtgc aggtggtgat
     3181 ttgatgtgtt atattcatca cgtacctgtg cattgcgtgc cagttactgt caccgtctga
     3241 cggctaatct tccggtgaca ctttcaaatg ctgaggagtg cgctaacact cctcagcgcc
     3301 gcttaaaaac acttcaattt tgcgccaaat cctttgatcc gtcaaacacc actctaagcc
     3361 gcgtcaatac tggcttgaag cggtattttc aacccgccag ttatccctta agtataaata
     3421 caaggatcgc gcgcgcgagc aacatcgcaa aaacgctcat tctttaatcg tttttggata
     3481 acctaatcgc ttcaacatcg acggtctacg accacctacc aaccgagtag ctgctagtcc
     3541 tgtgcaattt tggcttagca gggggctaac gcggtccctg acgacatgaa agcccttggt
     3601 taggggtatc ggcgcggcct ggcatttgtg attctctgaa accgtttttc gcgccttaca
     3661 tgccgctgac gcggcatctt cccgccatcg ggcatgactt aactaacagc caacattaga
     3721 gagagcgatc cgctcgccgc aaccctagcg accgaacgtt agtgagcgag tgggtgagga
     3781 agcggaagat aactgtaacg gacataatgc actcacgcat cacagcataa gaagaataaa
     3841 agtattacag caaatatatt cttgctgaat tatgccgata tttcagcgcg ggttttagct
     3901 tctgaaacat ccgcccaagt ggattttcag aagctggggg gagccgccga aaatttccgc
     3961 cccagcgaga aataggcacg ccaacgtgcc ggtttcggtg gggggcttgc cccgccacac
     4021 cgtcaagcca ggtaatattt cccgccccag cgggggatat taccgattag gcgcgacccc
     4081 catctttaaa gatgaattcc cattttttca agtttacgca gaaaaaatag gctaaattca
     4141 tcgtcttaaa gatgggggtc gcgcgtagcg cgcgacggtg tggccgcttt tgaccttcgg
     4201 ggttttgggg cggcgtccag ccgaagcaaa a
//
