LOCUS       NZ_CP093231             4693 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain EC-16-35 plasmid pEC-16-35-6, complete
            sequence.
ACCESSION   NZ_CP093231
VERSION     NZ_CP093231.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN26549900
            Assembly: GCF_022591475.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4693)
  AUTHORS   Qin,S. and Deng,R.
  TITLE     Escherichia coli 16-35 complete sequnce
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4693)
  AUTHORS   Qin,S. and Deng,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-MAR-2022) Institute of Drug Discovery & Development,
            ZhengZhou University, 100 Science Avenue, ZhengZhou, HeNan 450001,
            China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CLC NGS Cell v. 21.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1.0x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022591475.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 05:06:23
            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)                     :: 5,193
            CDSs (total)                      :: 5,070
            Genes (coding)                    :: 4,811
            CDSs (with protein)               :: 4,811
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 259
            CDSs (without protein)            :: 259
            Pseudo Genes (ambiguous residues) :: 0 of 259
            Pseudo Genes (frameshifted)       :: 84 of 259
            Pseudo Genes (incomplete)         :: 172 of 259
            Pseudo Genes (internal stop)      :: 61 of 259
            Pseudo Genes (multiple problems)  :: 53 of 259
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP093231.1.
            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..4693
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC-16-35"
                     /isolation_source="ascites"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC-16-35-6"
                     /geo_loc_name="China:Zhengzhou"
                     /lat_lon="34.76 N 113.65 E"
                     /collection_date="2016-07-16"
                     /collected_by="Qin,s."
     gene            324..437
                     /locus_tag="MNY24_RS26080"
                     /pseudo=""
     CDS             324..437
                     /locus_tag="MNY24_RS26080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            781..1896
                     /locus_tag="MNY24_RS25725"
     CDS             781..1896
                     /locus_tag="MNY24_RS25725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_064765252.1"
                     /translation="MIKEISLKNFKCFNELHLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKSRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGVNYKFKTATIITTSRKINKEATITNVSNLLTQKRKKDILEN
                     LRKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMNDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            1896..2528
                     /locus_tag="MNY24_RS25730"
     CDS             1896..2528
                     /locus_tag="MNY24_RS25730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012579086.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_064765251.1"
                     /translation="MKNINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIESFDEKESIFIILDADTSFTDTERSIIATLRELQISTPSAHNEIAMNGN
                     TKISFFIMPGKDKPGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDNISASDEEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKSFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            2969..3178
                     /locus_tag="MNY24_RS25735"
     CDS             2969..3178
                     /locus_tag="MNY24_RS25735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005227293.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YdgH/BhsA/McbA-like domain containing protein"
                     /protein_id="WP_064765250.1"
                     /translation="MKTIKTFVAVATLSMMSFGAFAQSVSATASTLDRAEAKIAAQAAE
                     QGASYKITSAQFNNRVHMTAELTK"
                     /name="YdgH/BhsA/McbA-like domain containing protein"
     gene            complement(4019..4420)
                     /locus_tag="MNY24_RS25740"
     CDS             complement(4019..4420)
                     /locus_tag="MNY24_RS25740"
                     /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_024623230.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQLKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4420..4611)
                     /locus_tag="MNY24_RS25745"
     CDS             complement(4420..4611)
                     /locus_tag="MNY24_RS25745"
                     /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_064765249.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLTSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          60..437
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.987"
                     /coverage="92.0"
                     /evalue="4.61e-167"
ORIGIN
        1 gttcggctgc ggcgagcggt cgcaacgcgc acataacgac atagagcaga cagcacggag
       61 agggagaagg cagcacagcg gccgtttttc cataggctcc gcccccctga caagcatcac
      121 agaatctgac gctcaaatca gtggtggcga aacccgacag gactataaag ataccaggcg
      181 tttccccctg atggctccct cgtgcgctct cctgttcctg ccattcggtt taccggtgtc
      241 attccgctgt ttatggccgc gtttgtctca ttccacgcct gacactcagt tccgggaagg
      301 cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtcctac tgctgcgcct
      361 aatccggtaa ctatcgtctt gagtccaacc cggaaagaca cgacaaagcg ccactggcag
      421 cagccactgg taactgattt agggagttag tcttgaagtt atacgccagt taaggctaaa
      481 ctaaacgaac agttttggtg actgcgctcc ctttaagcca gttacctcgg ttcatagagc
      541 gccaactcta ctgaaccttt cgaaaaaacc gcccgtcaag gcggtttttt cgttcacagc
      601 cggaagctta cggctgctgc cagataatct caagaagaaa gtaaaaaaaa tcgattaaaa
      661 cacaagcaat caaagttaat ctttgacata aagtctagct aatcacaatg aaagctgtac
      721 attttattaa ggcactaaca aatcgtatgg catataacaa aaacacgaac agaggctatc
      781 atgataaagg aaataagttt aaagaatttc aaatgcttca atgagctaca tctaaagcaa
      841 ttaaagactt taaatatcat agctgggaaa aacaactacg ggaaaacctc tatactggat
      901 gctatatttt gtttttatga tgtaaaaaac ccagccgtct tgttaaacat tcaagcattc
      961 agaaaagaaa tggcagaaat aaacaaaaac aagccatttt gggttagtta ctttcacgac
     1021 atggacacat cacaaaagat gtccatagtc attcgagatg aacgctctga agtaacacaa
     1081 acatatgaaa cagaaacaaa tcagagacta gaatcaagtt tatctctaaa cgttgacacc
     1141 gtactatcta accaaaacat acctcgtcaa actatcggtt ctcaggccac agtaaactcg
     1201 ttaaaaataa acgtgaccga gacacccaat gcaaaaagca gagtttccaa taagcttttc
     1261 tctatgcaat tgaaagaaga tggcgtagaa ataaaatcag aaataaaaaa cgaaagagat
     1321 ggggttaatt ataaatttaa gacagcaacg ataataacaa catccagaaa gataaacaaa
     1381 gaggcaacaa ttacaaatgt atcaaatcta ctaacacaaa aaagaaaaaa agatatatta
     1441 gaaaacttaa gaaaaataga tgacagaatt gtagatatag caatatctgc aataggtaac
     1501 aacaaggaaa tatatttaga cattggcttt agcgagctaa atgaaatatc aatgcttggc
     1561 gagggtatca gtcgagcatt atctttcatt agctcagtat tggtacagga aaactcaatt
     1621 attcttattg atgaaatcga gaacggaata cattactcag taattaaaga cataataaaa
     1681 tcattaattt catctgcaaa acaaaacaac aatcaaatat ttgcaacaac tcatagtcaa
     1741 gatgtgatac gagcaataaa cgaaatagat agcaaaaatg aagacatcgc ttacattaga
     1801 ctaggaagag aaaagaactc cctaaaacca acagccgtac aattcaatat gaatgatttt
     1861 tcctactcgg tagagaacga ctgggaggtc agataatgaa aaacataaac aatagcaaga
     1921 agatcatttt tgttgagggt gatgatgatt ttcattttct atgcaaccta cttgaaatac
     1981 aaggcattac cgatgttttt gtcgagaaga taaatggaaa atcaaaatta aaacaagcac
     2041 ttagagcatt caaaaacatt gagtctttcg atgaaaaaga aagcattttt attatattag
     2101 atgctgatac atcatttact gacacagaaa gatcaataat tgccacattg cgagaactac
     2161 aaatctccac ccccagcgcg cataacgaaa tagctatgaa tggcaataca aaaatttctt
     2221 tctttataat gccaggaaaa gacaagccag gtgccattga agatctgata attgaacacg
     2281 caagcactcg agcgttatat gaatacataa tagaattctt cgaaaaaatc aaaaataata
     2341 aagacaacat ctcagcgagt gacgaagagt acacttatcc aaccaacgaa aaaaaagcta
     2401 aggtacaagt ctatcttagc tgcaatagag aatccgactc aaggatagga atatccatga
     2461 aaaatggaat aataaacaca gcagacaatt gttttgatga aataaaaagt tttatttcaa
     2521 aaatataaat caaaattaag ccagcccttc acaggctggc ttatcccaga gcgttattaa
     2581 acgccggata acgtatagaa agcatcatat actttagtta tcagtaatct caaacgtcct
     2641 caagacatca ccagatgcca aaacaatgat tgtgcaaatc taatgtaaaa gacccagcac
     2701 aaggcgctcc cttaagttat attctctcta ttcacttaaa aaaattttac ataagaccat
     2761 aattttacga cccctcgagg ctattcatcc tgcccacccc taaatcagag tctcacacct
     2821 ggttttgatg tgctcatttt tttgttctat ttttttgaat gatatccgca aattgtttcg
     2881 attttaatca gctcatggtc gccctatcat ttatcacatc agggcaacaa cgccccatac
     2941 agaacaaaat tacttaagga atacgaccat gaaaaccatc aaaactttcg ttgcagttgc
     3001 cactctatcc atgatgtctt tcggtgcgtt tgctcagagc gtcagcgcta ccgcctccac
     3061 cctggatcgt gctgaagcaa aaattgccgc acaggccgct gaacaaggtg cgtcatacaa
     3121 aatcaccagc gctcagttca ataaccgtgt ccacatgacg gctgaactga ccaaataaga
     3181 tggtcgcaga gggagctgcc gaacaggtcg ccggaaggcg gcccgtttcg ccccttagca
     3241 ggaaaacctt caggcccctt cggggctttt ttgcatctat catttaacat aaagccatga
     3301 ttgtacgcac cgctaaaacg gcctcagggc gtttctgacg ggaaaccggc aaaacaggca
     3361 acaaaccacc cgaaaccccg ccagaaacgc gcaggctctg tttttacggc atgcatgagt
     3421 atgcacgcaa gtgcatagcg cgaaaattca cgccatttag ccagggttag tcctgtttcc
     3481 accgttcttc ccatccgaaa acggtgaacg gggacgcaat ttattgcgtg gccgtgaagc
     3541 gttgccggcg cagccggaaa accggttttc atcacgttca ggaatcgggt tcgtcgacgg
     3601 ccggcaatca cgttaggcaa gtcgccggac gactcaccac acgattcacc ggcgattcga
     3661 ctcgtgactt gactctagag tcgccaaggt caaaaaaaca ccaaaatgac gattcgactc
     3721 tagagtcaag tcgtcataag ttactgatag tcttaagtga gtcgtcgatg actctatgac
     3781 aagtcgtcgg cgattcgtct acgacttgcc gacgacttgg attcacctta cagaaagtaa
     3841 tactgcgtaa tttaataacc aacaactaac tgatattaat gggttatctt caaaatttta
     3901 attttgcgtg gggtgtgggt atttttagtg gtgaggagcg ttcagagatc tgacgatttt
     3961 tgggaaggtt caggaactcc ccggaatggc cggagaggaa aactaaagca tgacggggtc
     4021 aggatttttt ccagaatttc caccatggcg ccggggattc agttaatttt gcctggtgat
     4081 tttcaagaag gagcatggcc tgtttcaggc tgtcaatgtg cgaatccttg gacaaaagta
     4141 aggtgttcag gtgttcaatc tcctgtttca gatgacgaat cacctgttca ctctggtcag
     4201 cagaggctgt atcacgctgt tcagagacct gtccagaatg gtgttcaccc ttcagttgtt
     4261 caaagggacc aaagacacgt aaaagctctg aagtatctac catttttgca ttacgttcac
     4321 cgctacaggt ggacaggtca cctgctttaa ttaacctgtg cagtgttgtt ctactcttac
     4381 ccgtcagtcg ggcagcctca ctaatagaca ctctggccat cagttaccat cctgtaatgc
     4441 atccagtctc gaggtcagtg tacggaaaag atgctccgca tcatcgtgga gtttctcaca
     4501 aaggtcggcc tcagcatcaa gatcaagctc gttaagcttc tccagcagga gcagagactg
     4561 attctggatg aatttagcca tgttcagcgc tgttttctgt tgtttcgtca taagaggcct
     4621 cggagcgtca gtgctcagtg taaaaccagt ctcttttccg cttcctcgcc cactcagtcg
     4681 ctacgctcct gcc
//
