LOCUS       NZ_CP107725             4075 bp    DNA     circular CON 22-NOV-2023
DEFINITION  Escherichia coli strain 2021CK-01361 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP107725
VERSION     NZ_CP107725.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21924052
            Assembly: GCF_025853875.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4075)
  AUTHORS   Sangster,A., Hergert,J., Hirschi,B., Casey,R., Wagner,J., Young,E.L.
            and Oakeson,K.F.
  TITLE     2021CK-01361
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4075)
  AUTHORS   Sangster,A., Hergert,J., Hirschi,B., Casey,R., Wagner,J., Young,E.L.
            and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-OCT-2022) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 20.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/22/2023 14:25:17
            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)                     :: 5,345
            CDSs (total)                      :: 5,230
            Genes (coding)                    :: 4,924
            CDSs (with protein)               :: 4,924
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 306
            CDSs (without protein)            :: 306
            Pseudo Genes (ambiguous residues) :: 0 of 306
            Pseudo Genes (frameshifted)       :: 68 of 306
            Pseudo Genes (incomplete)         :: 231 of 306
            Pseudo Genes (internal stop)      :: 47 of 306
            Pseudo Genes (multiple problems)  :: 39 of 306
            Pseudo Genes (short protein)      :: 3 of 306
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP107725.1.
            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..4075
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2021CK-01361"
                     /isolation_source="Rectal Swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA"
                     /collection_date="2021-08-16"
     gene            complement(608..1009)
                     /locus_tag="N4T39_RS26555"
                     /old_locus_tag="N4T39_26555"
     CDS             complement(608..1009)
                     /locus_tag="N4T39_RS26555"
                     /old_locus_tag="N4T39_26555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000135006.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVTRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1009..1200)
                     /locus_tag="N4T39_RS26560"
                     /old_locus_tag="N4T39_26560"
     CDS             complement(1009..1200)
                     /locus_tag="N4T39_RS26560"
                     /old_locus_tag="N4T39_26560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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_000166329.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCETLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1669..1818)
                     /locus_tag="N4T39_RS26565"
                     /old_locus_tag="N4T39_26565"
     CDS             complement(1669..1818)
                     /locus_tag="N4T39_RS26565"
                     /old_locus_tag="N4T39_26565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001515742.1"
                     /translation="MPSEYDEQPDATDALFPGEYDLFDLMAHVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            complement(2755..3873)
                     /gene="wzz(fepE)"
                     /locus_tag="N4T39_RS26570"
                     /old_locus_tag="N4T39_26570"
     CDS             complement(2755..3873)
                     /gene="wzz(fepE)"
                     /locus_tag="N4T39_RS26570"
                     /old_locus_tag="N4T39_26570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243311.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0009103 - lipopolysaccharide biosynthetic
                     process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WP_264209248.1"
                     /translation="MFSMKISKISDEHFSNYNMLPNGNEEIDLFDLIRVLWAAKIKIVG
                     AILFFACIGFLVSFVLPQKWTSSAVVTPAESVQWSELNKELSKLHVLGVDFDINRDSAF
                     ALFIKKFQSVNSLNEYMRSSPYVMEIIKKKNISALELHRAIVGLSENMKSVDDNASKKN
                     DKSSLYVSWTLSFTAPTSKEAHDVLSGYINYVSSLVVRDLMEDIRNELEVKTNVEKEIL
                     ALDEIKIRNQLNADIRRLNYSLEVANAAGIKKPVYSNGQIMKDDPDFPVALGSDGIATK
                     LNIKKSIKDVSELSGELRNRQYVVNQLVVAKVGDVDFMPFQYQLSPTLPVRKDGPSNAI
                     IVILSSVIGGMLACGYILLRHAMEARKMSVIE"
                     /name="wzz(fepE)"
     Typing          complement(1812..2026)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.091"
                     /coverage="100.0"
                     /evalue="3.48e-51"
     Typing          2007..2535
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.545"
                     /coverage="89.0"
                     /evalue="1.2e-144"
ORIGIN
        1 gcatgagtat gcacgcaagt gcatagcgcg aaaattcacg ccattcagcc agggtaagtc
       61 ctgtttccgg cgttcttcct atccgaaaac ggtgaacggg gacgcaattt attgcgtggc
      121 cgtgaagcgt tgccggcgca gccggaaaac cggttttcag cacgatcagg aatcgggttc
      181 gtcgacggcc ggcaatcacg ttatggcaag tcgccggacg actcaccaga caattcaccg
      241 gcgattcgac tcgtgacttg actctagagt cgtaaaggtc aaaaaaacac caaaatgacg
      301 attcaactct agagtcaagt catcataagt tactgatagt cttaagtgag tcgtcgatga
      361 ctctatgacg agtcgtcagc aagtcgtaca cgaatcgccg acgacttgga ttcaccttac
      421 agaaagtaat actgcgtaat ttaataaccc acaactaact gatattaatg agttatcttc
      481 aaaattttaa ttttgcgtag ggtgtgggta tttttagtgg tgaggagcgt tcagagatct
      541 gacgattttt gggaaggttc aggaactccc cgggatggcc ggagaggaaa actgaagcat
      601 gacggggtca ggattttttc cagaatttcc accatggcgc cggggattca gttaattttg
      661 cctggtgatt ttcaagaagg agcatagcct gtttcaggct gtcaatgtgc gaatccttgg
      721 acaaaagtaa ggtgttcagg tgttcaatct cctgtttcag atgacgagtc acctgttcac
      781 tctggtcagc agaggctgta tcacgctgtt cagagacctg tccagaatgg tgttcaccct
      841 tcggttgttc aaagggacca aagacacgta aaagctctga agtatctacc atttttgcat
      901 tgcgttcacc gctacaggtg gacaggtcac ctgctttaat taacctgtgc agtgttgttc
      961 tactcttacc cgtcagtcgg gcagcctcac taatagatac tctggccatc agttaccatc
     1021 ctgtaatgca tccaatctcg aggacagtgt acggaaaaga tgctccgcat catcgtggag
     1081 tgtctcacaa aggtccgcct caacatcgag atcaagctcg ttaagcttct ccagcaggag
     1141 cagagactga ttctggatga atttagccat gttcagcgct gttttctgtt gtttcgtcat
     1201 aagggccctc agagcatcag tgctcagtat aaaccggtaa gggggtcgga tgtacgaatg
     1261 gttcagagaa cggatctgag gttatcctgt agttattttg tagtttatct gtagtcatcg
     1321 cactaaaacg caggattaaa tcatcaactt ttgtagtctt cctgtagtct ggaaaaataa
     1381 tccgttcatg cttgcatgaa cgaagcagtt aaagacgctt tttcgtcgcc gatgatcctt
     1441 aacctgcgca gatcacccag ccagaatgat aattttttgc cccttaaatg gtcatacacc
     1501 taacgcagcc gcgattttta tcgcaactgc atgaattaaa tgaaaaaaat ggagttattt
     1561 cgtgtattag cgtaatacgc aacgtattac aatcatctgt aacaacatga aaataaacaa
     1621 ataacatgta ataccagcgt attacatgta cgctggccag cgaaaaagct ataacgcttc
     1681 ccggccgaca ggcgggccag aatccaccgg ggcgtgcagg ttctcttcag taacatgagc
     1741 cattaagtca aaaaggtcat attcgccggg aaacagagca tcagtcgcat ccggttgttc
     1801 atcatactca gatggcatgg tgtgatatcc agtagctgag gggtgttagc gggtttcggg
     1861 gcgcagccct gaaccagtca cgtagcgcta gcggagtgca tactggctaa atattttaaa
     1921 ccgaagtggt gatttgccaa agtgcttcat gtggcaggag tgaaatgagg cttaccggcg
     1981 tcaggagaag atgctggttc aggtgatatt ccgcttcctc gctcactgac tcgctgcgct
     2041 cggtcgttcg gctgcggcga gcggtgcagg cttacgaatg gggcggaaat ttatttcctg
     2101 gtggatgcca ggaagaaact taacagggat acgataaggc cgcggcaaag ccgtttttcc
     2161 ataggctccg cccccctgac aagcatcacg aaatctgacg ctcaaatcag tggtggcgaa
     2221 acccgacagg actataaaga taccaggcgt ttccccctgg tggctccctc ttgcgctctc
     2281 ctgttcccgt cctgcggcat ccgtgtagtg gtggaagctt tacctaaatc accacgcccc
     2341 gttccgttta gacagttcgc tccaagctgg gctgtatgca agaacccccc gttcagcccg
     2401 accgctgcgc cttatccggt aactatcgtc ttgagtccaa cccggtaaga cacgacttaa
     2461 cgccattggc agcggccact ggtaaacagg atgtgcgaga gatgtattga gagttcttga
     2521 agtggcagcc ttactgaggc tacactagaa ggacagattt ggtgacatgt ctcgcacaag
     2581 actgttacca cggttcagaa gttccccaac ttactgaacc ttcgaaaaac cacctcccca
     2641 ggtggttttt tcgttttcta gagtagaaga ctacggctgt aagggaatga tctcaagaag
     2701 atcctttgaa ctttttataa aagttgctta taaaatgatg catcagcaca acttttactc
     2761 aatcacactc atctttctgg cctccatggc atgacgtaaa agtatatagc cacatgcaag
     2821 catccctcca atgacagaag aaagaattac aattatggca ttacttggcc catcctttct
     2881 gaccggtaac gttgggctca attgatactg aaacggcata aaatcaacat cccccacttt
     2941 cgccacaacc aattgattca caacatattg acgatttcgc aactccccac tcaattccga
     3001 aacatccttg attgattttt tgatgttcaa tttagttgct ataccatcag aaccgagagc
     3061 cacaggaaaa tctggatcat ccttcataat ctgaccattg ctgtatacag gtttttttat
     3121 tccagccgca ttagcaacct ccagtgaata attgaggcgt cgaatatctg cattcagctg
     3181 gtttctaatt tttatctcat ccagtgcaag aatttctttt tcaacattag ttttaacttc
     3241 tagttcattt cttatatctt ccatcaaatc ccttacaaca agggaagaaa cataattaat
     3301 atacccagac aacacatcgt gagcttcttt acttgttgga gcagtaaaac tcagagtcca
     3361 tgatacatac aatgatgact tgtcgttttt cttactggca ttatcatcaa ccgacttcat
     3421 attttcactc aacccaacaa ttgcacgatg cagttcgaga gcgctaatgt tcttcttttt
     3481 aattatctcc ataacataag gagatgatct catatactca ttcaacgaat taacggactg
     3541 aaatttctta ataaacagag caaatgcgct atcacgattg atatcaaaat ccactcccag
     3601 aacatgaagc ttggaaagct ccttatttaa ttcactccat tgaacagact cagcaggagt
     3661 aaccacagca gaactagtcc atttttgtgg caaaacaaaa gaaacaagaa agccaataca
     3721 agcaaaaaat agaatcgccc caacaatttt tatttttgct gcccataaaa ctctaatcaa
     3781 gtcaaaaagg tcaatttctt cattaccatt cggcaacatg ttgtaattag aaaaatgttc
     3841 gtcagatatc tttgagattt tcattgaaaa aatacaatat attaacatat ggttttttta
     3901 ttctatcata tgttaggaaa aatcctaaaa accattcagc agacatttaa cataacattt
     3961 taattgtacg caccactaaa acggcctcag ggcgtttctg acgggaaacc ggtaaaacag
     4021 gcaacaaacc acccgaaaac ccgccagaaa cgcgcaggct ctgtttttac ggcat
//
