LOCUS       NZ_AP027929             3240 bp    DNA     circular CON 21-JUN-2024
DEFINITION  Escherichia fergusonii strain 30038 plasmid p30038n3, complete
            sequence.
ACCESSION   NZ_AP027929
VERSION     NZ_AP027929.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00514633
            Sequence Read Archive: DRR394969
            Assembly: GCF_030296855.1
KEYWORDS    RefSeq.
SOURCE      Escherichia fergusonii
  ORGANISM  Escherichia fergusonii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Ogura,Y. and Okuno,M.
  TITLE     Escherichia fergusonii
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3240)
  AUTHORS   Ogura,Y. and Okuno,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-MAR-2023) Contact:Yoshitoshi Ogura Kurume University
            School of Medicine, Department of Infectious Medicine; Asahi-machi
            67, Kurume, Fukuoka 830-0011, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Coverage                   :: 65x
            Sequencing Technology             :: MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030296855.1-RS_2024_06_21
            Annotation Date                   :: 06/21/2024 05:33:45
            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)                     :: 4,907
            CDSs (total)                      :: 4,790
            Genes (coding)                    :: 4,659
            CDSs (with protein)               :: 4,659
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 131
            CDSs (without protein)            :: 131
            Pseudo Genes (ambiguous residues) :: 0 of 131
            Pseudo Genes (frameshifted)       :: 40 of 131
            Pseudo Genes (incomplete)         :: 106 of 131
            Pseudo Genes (internal stop)      :: 20 of 131
            Pseudo Genes (multiple problems)  :: 31 of 131
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027929.1.
            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..3240
                     /organism="Escherichia fergusonii"
                     /mol_type="genomic DNA"
                     /strain="30038"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:564"
                     /plasmid="p30038n3"
                     /geo_loc_name="Japan"
                     /collection_date="2014"
     gene            743..901
                     /locus_tag="QUE84_RS24575"
     CDS             743..901
                     /locus_tag="QUE84_RS24575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001403044.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKTPLAAAIGIWFTERRGV
                     YKHTQSS"
                     /name="hypothetical protein"
     gene            complement(1090..2622)
                     /locus_tag="QUE84_RS24460"
                     /old_locus_tag="Ef30038_46860"
     CDS             complement(1090..2622)
                     /locus_tag="QUE84_RS24460"
                     /old_locus_tag="Ef30038_46860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017899153.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NERD domain-containing protein"
                     /protein_id="WP_020244555.1"
                     /translation="MKKSVVRQVLEMSGPCISSDLAERIQWQYPSMSPEAIRKMISRST
                     DIGKLPFLKFSHNRRFIYLKDDFGSFKFWRALEKCMYEANSTYSHAILAVINNGGYLKV
                     KDFGIVSGSPIKQAKHLSYETVLRNLLSAKILRAVYIDGVGDCVLINNNIANDVNIRTM
                     ANCESFFDKPIFELVKAWLRNLGLVAFNQIKTKYDGEGNPVVGSFEWDMTAPSYVSPLA
                     EYVGGKLMPGFVACDFSLGFNRDEITTAAAETFIRKVQMTKSSRASQRIMFVIFARRFG
                     KIAFNKLRSEGVLAVTIANAFGNKVDESLTRLSRVVQGSLSIEKHPDELLQMVKDLESV
                     SGENGNLRGYVFELFVSSQISNFYGLGNIYINREYKINGKHAEADVVLESSDDIYIIEC
                     KNVKVLPSTELTRWMKERVPIINSYYKINNLEKKNIHHYLWVTGNVYNKDLKRLDSFKN
                     NNKNIDVDYLFGEHLDDFFYKKKRVFNLYRKVISPDYKKGVMPDFELEDDFF"
                     /name="NERD domain-containing protein"
     Typing          562..1042
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.137"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 gccttgttta tggagcgcaa aaagagagtg gtagcagtcc gatagcaaaa aagtagcaaa
       61 aagatagcaa aaggagagca accgaaaggc tcaaaggccc ctgaaatagc aaaaagatag
      121 caaaaaaata gcaaaaaagt agcaaacata cggtgtcggg cggaacctga ccaggagtca
      181 ttggcgtgcc ggcggtactc caaaaataca tcttgtcccg ctgtcgtgta gccacaaaac
      241 atttcctgtc cgctgcttta acctttgtaa tccaggaacg tcaggtgacg tcactttgcg
      301 gcgttcgccc tatcctgcat cgtattaaaa aatgcagcta tggcgcgtac ggtgccaaag
      361 agaagcccgc agatattccg cttcctcgct cactgactcg ctccgctcgg tcgttcggct
      421 gcggcgagcg gagggaacag agacattaag ccataggcaa tgagagagaa tggagaagca
      481 acaagaaagg ccgcggcgtt gccggttttc cataggctcc gcccccctga caagcatcac
      541 agaatctgac gctcaaatca gtggtggcga accccgacag gactataaag atcccaggcg
      601 tttccccctg gtagctccct cgtgcgctct cctgttcctg cctttcggtt taccggtgtc
      661 actccgctgt tatggccgcg tttatctcat tccacgcctg acactcagtt ccgggaaggc
      721 agttcgctcc aagctggact gtatgcacga accccccgtt cagtccgact gctgcgcctg
      781 ttccggtaac tatcgacttg agtccaaccc ggaaagacac gacaaaacgc cactggcagc
      841 agccattggt atctggttta cggagcggag aggcgtgtac aagcatacac agagttcttg
      901 aagtgttgac ctgactacgg ctacactgga aggacagatt tggtcactgc gctccgttta
      961 agccagttac cacggttcag aaacttgccg gtttcctgaa ccttcgaaaa accaccttgc
     1021 cgggtggttt tttcgtttca gagatggaag atacgccttt caaagcgcca tcgtcaagaa
     1081 acgcagtagc tagaaaaaat cgtcctctaa ctcaaaatca ggcattacgc cttttttata
     1141 atcaggtgaa atgacttttc tatataagtt gaacacccgc tttttcttgt aaaagaaatc
     1201 atccaaatgc tcaccaaaca aataatcaac atcgatattc ttattattat tcttaaaaga
     1261 gtctaacctt tttaaatctt tgttgtacac attccctgta acccacaaat aatggtggat
     1321 attctttttt tctaaattat ttattttata gtaagagttt ataattggaa ccctttcttt
     1381 catccaacgc gtaagttcag ttgaaggtaa gaccttaaca tttttgcact ctattatata
     1441 aatatcgtca ctactctcca atacaacatc agcttctgca tgcttaccat ttatcttata
     1501 ctctctatta atgtaaatat taccaaggcc ataaaaatta gaaatttgcg aggatacaaa
     1561 aagctcaaaa acataccctc tcaaattgcc attctctcca gaaacagact ccagatcttt
     1621 aaccatctga agcaactcat ctggatgctt ttcaatggac aaagaaccct gaaccaccct
     1681 cgacaacctg gttaagcttt catcaacttt attaccaaac gcatttgcta tagttacagc
     1741 cagaaccccc tcacttctca acttattgaa ggctattttg ccgaaacgcc ttgcgaaaat
     1801 aacaaacatt atcctctgac tcgctcgaga agacttggtc atctggactt ttcttatgaa
     1861 tgtttctgct gcagcggtag taatttcatc acgattaaag ccgagagaaa aatcacaggc
     1921 aacgaaacca ggcatcagtt ttccgccgac atattcagcg agaggggaaa cgtaacttgg
     1981 agcggtcata tcccattcaa aagagcctac aactggattt ccctccccat catattttgt
     2041 ttttatctga ttaaaagcga ctaggcctaa attcctcaac caagctttaa caagctcaaa
     2101 tattggtttg tcaaaaaagg attcgcaatt tgccattgtt ctaatattaa catcgttggc
     2161 tatgttgtta tttatcagta cgcaatcacc aactccatca atatacacgg ctctaagtat
     2221 ttttgccgaa agtagatttc ttagaactgt ttcataactt aaatgtttag cttgttttat
     2281 aggagatcca gacacaatcc caaaatcttt caccttcaaa taaccgccat tatttattac
     2341 ggcaagtatc gcgtgtgagt aagttgagtt tgcttcgtac atgcactttt cgagagctcg
     2401 ccaaaatttg aaactgccaa aatcatcttt tagataaatg aatctcctgt tatggctgaa
     2461 tttcaaaaat ggcagcttac ctatgtccgt gcttcgcgag atcattttac gtatcgcttc
     2521 aggggacatt gagggatatt gccactgaat tctctctgca agatccgaag agatgcatgg
     2581 cccgctcatt tcaagcacct gtctaacaac actttttttc atatcctcac cttatttctg
     2641 tcacactacg ctatttataa tattacacta cgtgtaatag ggcgcagtct tttaaaaaaa
     2701 agtgactata aaaaatagtt aaaaatcaga tggttaatta cttactttaa attgagcaca
     2761 aagaaatatc gtctttataa ttatttaatc cttttaaatc ataaagatag tattgtgaca
     2821 tttttttatc gaactatcag ctactccatt taccataaca tccgttgccc gcaccatctc
     2881 agacgccctc agagcatttc tgcgccctcc tgcctatttc cggcatcttt ccctgtccat
     2941 atcgtgaaaa aacgcgcctg atgatttctt cgcgtctgca tggctatgca tacgaacgca
     3001 tggacgtcat tttagcggct aaaatccggc gagcgccctg aaagccacca cgaaccccac
     3061 cgataacggt gaaagggtgc gcagtttact gtgcgaccgt gaggcgttgg ccaggccgtc
     3121 aggcatggca ggatttattg ctaagggggt cggatttaac ctggattaat cagcacacag
     3181 tgatgaacgg gattcggaag gggcaccctt gcggcgcggc gatgtataca tcgctaacgt
//
