LOCUS       NZ_AP022485             5429 bp    DNA     circular CON 16-JUN-2023
DEFINITION  Escherichia coli strain STN0717-20 plasmid pSTN0717-20-3, complete
            sequence.
ACCESSION   NZ_AP022485
VERSION     NZ_AP022485.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195939
            Sequence Read Archive: DRR199744
            Assembly: GCF_015136895.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     complete genome sequences of Escherichia coli str. STN0717-20
            isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5429)
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-FEB-2020) Contact:Tsuyoshi Sekizuka National Institute
            of Infectious Diseases, Pathogen Genomics Center; 1-23-1 Toyama,
            Shinjuku-ku, Tokyo 162-8640, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: flye v. 2.5; minimap v. 0.2-r124; racon v. 1.1.0;
            circlator v. 1.5.3; Pilon v. 1.18; SPAdes v. 3.11.1; A5-miseq v.
            20140604
            Genome Coverage                   :: 272x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/15/2023 04:17:05
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,850
            CDSs (total)                      :: 4,735
            Genes (coding)                    :: 4,528
            CDSs (with protein)               :: 4,528
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 207
            CDSs (without protein)            :: 207
            Pseudo Genes (ambiguous residues) :: 0 of 207
            Pseudo Genes (frameshifted)       :: 80 of 207
            Pseudo Genes (incomplete)         :: 124 of 207
            Pseudo Genes (internal stop)      :: 50 of 207
            Pseudo Genes (multiple problems)  :: 42 of 207
            Pseudo Genes (short protein)      :: 2 of 207
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022485.1.
            Annotated by DFAST v.1.2.3 (https://dfast.nig.ac.jp).
            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..5429
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STN0717-20"
                     /isolation_source="sewage"
                     /db_xref="taxon:562"
                     /plasmid="pSTN0717-20-3"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-07-17"
     gene            93..413
                     /locus_tag="JLE48_RS23915"
                     /old_locus_tag="STN0717ESC20_P30010"
     CDS             93..413
                     /locus_tag="JLE48_RS23915"
                     /old_locus_tag="STN0717ESC20_P30010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000957082.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNTGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGND
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            622..>1056
                     /locus_tag="JLE48_RS24335"
                     /pseudo=""
     CDS             622..>1056
                     /locus_tag="JLE48_RS24335"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1091..1576
                     /locus_tag="JLE48_RS23925"
     CDS             1091..1576
                     /locus_tag="JLE48_RS23925"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001749519.1"
                     /translation="MSSLLALAKDLEKQSKAQQQNTCEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEQKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            1580..1792
                     /locus_tag="JLE48_RS23930"
     CDS             1580..1792
                     /locus_tag="JLE48_RS23930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2613..3023
                     /locus_tag="JLE48_RS23935"
                     /old_locus_tag="STN0717ESC20_P30040"
     CDS             2613..3023
                     /locus_tag="JLE48_RS23935"
                     /old_locus_tag="STN0717ESC20_P30040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000874179.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000874179.1"
                     /translation="MAFISLSNLAAKTGRIIQSQCVTATQTKKSTGAVELGFRLSKSAM
                     DETGITIGDRVDILYDKEENQWMIKKISEGGFGVSGQKNKHGGYSSCAVRLTLRPGFPR
                     LSEDEEDNKKLLSDDSFTQLSEGVIVFRLDDE"
                     /name="hypothetical protein"
     gene            3281..3844
                     /locus_tag="JLE48_RS23940"
                     /old_locus_tag="STN0717ESC20_P30060"
     CDS             3281..3844
                     /locus_tag="JLE48_RS23940"
                     /old_locus_tag="STN0717ESC20_P30060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015959180.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001749520.1"
                     /translation="MHALSILPSVARANLATKFSSHLKVIELFNTMQDSQVVVLSSLIE
                     GHHLTSSGNSVKADFEVTRLPAIIEMLEKKYFFPIRHLNVSVKSVTTGRMTGQTVYFIE
                     PEHIEQLLADPELVFANQERSLFFRSLEKEGKNLGKLIEKKGSVSQAVLSLLHHAYKDK
                     PLSDEMWKEIEDKFTHMLDELSAA"
                     /name="hypothetical protein"
     gene            complement(3873..4499)
                     /locus_tag="JLE48_RS23945"
                     /old_locus_tag="STN0717ESC20_P30070"
     CDS             complement(3873..4499)
                     /locus_tag="JLE48_RS23945"
                     /old_locus_tag="STN0717ESC20_P30070"
                     /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_223149424.1"
                     /translation="MSPTLNKQASKERCAVEFATRKKSKTQRKKSKALSYRGLCFFCTL
                     VTGKCQWTSKMSKQDYIQLRTLTDQFYADNKGLQEALDGSNDGKVRGYGIVVIDLNGLV
                     FGIPLRSHLNHKFGFVSERSEGVKKGLDYTKALLIKKEEYVSRAYKIPTPEFTHINDNK
                     EKIQEDFNKFVNRYIEANVKKDENILRNYRYSTLKNYHKELGLED"
                     /name="hypothetical protein"
     Typing          5235..5414
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.339"
                     /coverage="83.0"
                     /evalue="7.539999999999999e-48"
     Typing          complement(4776..5289)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.217"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          404..1908
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.426"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctgcggcttg tccaacaccg tgccgaccgg gaaacatttc ccgcccgtcc cggtgttatc
       61 aggaggctac tctggcagac aaacgcaaca agatgctcac gatgtgggtg acggaagacg
      121 aacaccggcg gctgctcgag cggtgcgacg gcaagcagct ggcggcgtgg atgcgtcaga
      181 cctgcctcga tgagaagccg gcgcgtgccg gcagactgcc gtcgatatcg ccggcgctgc
      241 tgcgccagct tgccggtatg ggtaataacc tgaaccagat cgcccggaaa gtgaataccg
      301 gtggtgccgg tcatgaccgg gtgcagatcg tggccgccct gatggcaatc gacgcgggac
      361 tggagcggct gcggcatgcg gtgctggaaa aaggggggaa tgatgatcgt taaattccat
      421 ccccgggggc gcggtggtgg tgccggtccg gtggattacc tgctgggaaa agaccggcag
      481 cgcgaggggg cgaccgtgct gcagggaaag ccggaggaag tccgggagct tatcgatgcc
      541 tcgccgtatg cgaaaaagta cacctccggc gtactgtcgt tcgcggaggc tgagctgccg
      601 cccgggcagc gggagcagat catggccagc tttgagcggg ttctgatgcc cgggctcgat
      661 aaagaccagt acagcattct gtgggtggag cacaccgaca aggggcggct ggagctgaat
      721 ttcctgatcc ccaacacaga gctgctgacc gggaaacgcc tgcagccgta ttacgatcgc
      781 gccgaccggc cgcgcatcga tgcctggcag accgtggtga acggcagact ggggctgcat
      841 gatccaaacg ccccgaagaa ccggcggtta ctggtcacgc cgtccgcact gccggaaacg
      901 aagctggaag ccgctcaggc gattacacgg ggtttgctgg ccttagcctc atccggggcg
      961 ctcaaaacgc gcgaggacgt cacagggtcg ctcactgcgg caggttttga ggtggtccgc
     1021 accacaaaga acagtatcag cattgccgac ccggacgggg ggcgaaacat ccgactgaag
     1081 ggagccattt atgagcagtc ttttagcgct ggcgaaggac ttggaaaagc aatcgaaagc
     1141 gcagcagcag aatacctgcg agatgctgaa agccgcattc agcgagcacg agaagtctgt
     1201 aaaagcggaa ctgagcgcaa gcgcgaagag aatcagcgac gccatcagcg cccacgagca
     1261 gggtatgacc gcggcgatgc agtcgaaccg gctgagcgtg ctgcgtatgg ttggccggac
     1321 gtggctgacc atcaccctgg tctcagtact gctgatcgcc acgagcggga gcattctgtg
     1381 gtggcagggg cagcagatca ccgggaatta ccagactatc cgggcgcagg agcggacgca
     1441 ggccatgctg tcggagaaga accacggcgt gcagctgtcg ctctgtgggg aacagaaact
     1501 gtcctgcgtc aaagtgaacc cgaaagcggg agcttacggg gaggaaggga actggatggt
     1561 actggagagg aaatagccca tgacggaact ggaaaaacag ttgctgaccg cattagagca
     1621 gctacatcag gactactcgc aaaggctgga cgagtgggag agcgccttcg cggaatggca
     1681 gaagatgtct ggtcttatgc aacgggagaa cgcggcgctg aacgagcgcg tcacgcgctt
     1741 gagtcagcag gtggcgaact tgagcaggca gttacagcgt ttgagccagt agtgcagcgg
     1801 catgaaatgg cggtggccgc cgaacgggca tacgagcagc gacagcatga aaaagagctg
     1861 gcagaacccc gtttccgtca gcggagctat aacggtccga cgctgggctg actgcgcgca
     1921 tccagtgaca aaccccaaga agaagggctc ataaatttcc cgctaaatac ggtcgtgatg
     1981 aaaagatcac ggctcaagag agggggattt atgaagatac taaaagcgct cagtctgata
     2041 ctgcaatgcg tcaaactggc aatggatctg tgggagcgat tcgggggaaa gtggcctttt
     2101 tagtgcttta caccgtattt atacgcgaaa actgctgtca ttcatctggc tgcataacca
     2161 tgcagccagg tgaaatttat ctggcgtaaa cggggcggtt taccgggtgc tttgctaggg
     2221 gtttcacccg acaggcaccg tatttgcgcc gaaccagccc gaagcggtgc gggcaagaac
     2281 tcttatgtta aattcatctc atcggcaacc tatacaggca taaaaatcag tttctataag
     2341 cggctttctt gcacctactt ggtgattttt ttggatgcgc tgacgttgct cgactttaaa
     2401 ttaccataga aaataccctt tacttacata aagatcgatc tggatgtgta tcttgacgag
     2461 gttcaatacg agcaattgtt tttgtattta aggtttctta tcgccgtttt ttgcggctct
     2521 agaaaaatca atacaaaaga tcttgaaagc cacctcgctc cctgggtaca cttccgtata
     2581 agaactgatc gatgtctaaa acggattgta ttatggcttt tatctctcta tcgaacttgg
     2641 cagcgaagac tggaaggata atccagtcgc agtgtgttac ggccacgcaa acgaaaaaaa
     2701 gcacgggcgc tgtcgagctg ggattccgct tgagcaagag cgctatggac gagactggta
     2761 ttaccattgg ggatcgtgtc gacattcttt acgacaaaga agaaaaccag tggatgatta
     2821 agaaaattag tgaaggtggc tttggtgtgt ctgggcaaaa aaacaagcac ggcggttact
     2881 catcgtgtgc tgttagattg accttgcgac caggttttcc tcgcctttct gaggatgaag
     2941 aggacaacaa gaagctactt tccgatgatt cattcactca gctaagtgaa ggtgtaatcg
     3001 tcttcaggct ggatgatgaa taggaaggac caaaaaggaa aggcagagtt agtgagcgtc
     3061 gccaaacaat cgactaactc cgccttcttg tcaacacatc actacctttg gaagggtgga
     3121 gtgttatggg cggcattatg ttcataaact tgcattctaa taaagaaaaa atcgtttctt
     3181 ttgagggatg tgaacacgac attttctatt ctgataggtg cgatgctatt ggctttggtc
     3241 tcttaagttt atgtttttaa aaacatatga ggctatacat atgcacgctt tatcaatact
     3301 accttcagtt gcccgcgcta acctggcaac taaattctcg tctcatttga aggtgatcga
     3361 gctcttcaac acgatgcagg attcccaagt tgttgtcttg tcatcactga tcgaaggcca
     3421 tcacctcacc agttctggta acagtgtcaa agccgacttt gaggtcactc gcttaccggc
     3481 gattatcgag atgttagaga aaaaatattt tttccctatt cgtcatctaa atgtatctgt
     3541 taaatctgta actacaggaa ggatgactgg acaaactgtc tatttcatag agcctgaaca
     3601 catcgagcaa cttctcgctg atcctgagct tgtgtttgct aatcaggaaa ggagcctctt
     3661 ctttcgttct ctcgaaaaag aagggaaaaa tcttggcaag cttatcgaga aaaaaggtag
     3721 tgtttctcaa gccgtcttaa gccttctaca tcacgcctac aaagataaac ctctttctga
     3781 cgagatgtgg aaggagatag aagataagtt cacccatatg ctggatgaat tgagcgcggc
     3841 gtaaaggcaa gggcggtcgt tagaccgcct ttttagtctt ctaaacctaa ttctttgtga
     3901 tagtttttca gcgtagagta acgatagttt ctgagtatgt tttcatcttt cttgacgttc
     3961 gcttctatgt atctgtttac gaatttgttg aaatcttctt gtattttttc tttgttatca
     4021 ttgatatggg taaattcagg agttggtatc ttataggctc gcgatacata ctcttctttc
     4081 ttaattagca acgctttggt gtaatccagt cctttcttaa caccttctga tcgctccgaa
     4141 acgaatccaa atttatggtt taaatggctt cgtaagggta tcccgaacac caatccgttg
     4201 agatcaataa ctacgattcc gtagcctctt acttttccat cattactgcc gtcgagagcc
     4261 tcttgtaggc ctttgttatc agcataaaac tggtctgtaa gggttcttaa ctgtatgtaa
     4321 tcctgtttgc tcatttttga tgtccattgg cattttcctg taaccaatgt acaaaaaaag
     4381 caaagccctc tgtaagagag ggctttgctt ttctttcgtt gagtcttgga ttttttacgt
     4441 gtggcgaact ctaccgcaca tctttctttg gaagcttgtt tgtttaacgt ggggctcatt
     4501 cctaccgcca cttctagatt tacttatatc aaaaattata tgtgaagtca atttcgtagc
     4561 tgttcttgac tggacttact ttgccagcgt aatcttctcc tgaaacgaaa aaaccaccct
     4621 ggcaggtggt ttttcgaagg ttatttaatc ctggcagatt atctaaccgt ggtaacagtc
     4681 ttgtgcgaga cgtgtcacca aatccgtcct tccagtgtag cctcagtaag gccaccactt
     4741 caagaactct caatacatct ctcgcacatc atgtttacca gtggccgttg ccaatggcga
     4801 ttagtcgtgt ctttccgggt tggactcaag tcgatagtta ccggaaaagg cgcagcggtc
     4861 ggactgaacg gggggttcgt gcatacagtc cagcttggag cgaactgcct acccggaact
     4921 gagtgtcagg cgtggaatga gataaacgcg gccataacag cggaatgaca ccggtaaacc
     4981 gaaaggcagg aacaggagag cgcacgaggg agccaccagg gggaaacgcc tggtatcttt
     5041 atagtcctgt cgggtttcgc caccactgat ttgagcgtca gatttcgtga tgcttgtcag
     5101 gggggcggag cctatggaaa aacggcagcg ccgcatcctt ttcttgccct gtttgtcatg
     5161 ccgtatgcct ttgctcttat ccgtgtgcag gtaacgcccg ccgcagccga acggcaggag
     5221 cggaagcgac cgagtgagcg aggaggcgta atatcaccgc aacctccatg ttctcccgta
     5281 cgccctgcag ctgcattttc ccctgccaca tgaagcactt ttataaagtg ttactccgcc
     5341 gtaacatatt aagccagtat acactccgct agcgctacgt gactggttca gggctgcgcc
     5401 ccgaaacccg ctaaaagcca ctgacgcgc
//
