LOCUS       NZ_CP034954             4097 bp    DNA     circular CON 19-JUN-2024
DEFINITION  Escherichia coli strain SCEC020026 plasmid p1_020026, complete
            sequence.
ACCESSION   NZ_CP034954
VERSION     NZ_CP034954.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06909178
            Assembly: GCF_002164975.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4097)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain SCEC020026
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4097)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-JAN-2019) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
REFERENCE   3  (bases 1 to 4097)
  AUTHORS   Liu,L., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-MAY-2017) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002164975.2-RS_2024_06_19
            Annotation Date                   :: 06/19/2024 15:53:15
            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)                     :: 4,801
            CDSs (total)                      :: 4,685
            Genes (coding)                    :: 4,445
            CDSs (with protein)               :: 4,445
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 240
            CDSs (without protein)            :: 240
            Pseudo Genes (ambiguous residues) :: 0 of 240
            Pseudo Genes (frameshifted)       :: 77 of 240
            Pseudo Genes (incomplete)         :: 154 of 240
            Pseudo Genes (internal stop)      :: 50 of 240
            Pseudo Genes (multiple problems)  :: 34 of 240
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP034954.1.
            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..4097
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SCEC020026"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p1_020026"
                     /geo_loc_name="China: Sichuan"
                     /collection_date="2016-09"
     gene            join(3858..4097,1..435)
                     /locus_tag="C7V14_RS00005"
                     /old_locus_tag="C7V14_00005"
     CDS             join(3858..4097,1..435)
                     /locus_tag="C7V14_RS00005"
                     /old_locus_tag="C7V14_00005"
                     /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="NYN domain-containing protein"
                     /protein_id="WP_072644308.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRSRESQL
                     IQVKFFTAEIKAKFASRGELAHQAQQAYHRALVQIYGDNLQIIKGYYSERQECAMTFNE
                     GHPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEAEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISSLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     gene            complement(1425..1619)
                     /locus_tag="C7V14_RS00010"
                     /old_locus_tag="C7V14_00010"
     CDS             complement(1425..1619)
                     /locus_tag="C7V14_RS00010"
                     /old_locus_tag="C7V14_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_072644309.1"
                     /translation="MNKQQQIALNMARFIKSQSLTLLEKLDALDADEQATMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2666..2929)
                     /locus_tag="C7V14_RS00020"
                     /old_locus_tag="C7V14_00020"
     CDS             complement(2666..2929)
                     /locus_tag="C7V14_RS00020"
                     /old_locus_tag="C7V14_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891192.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein L"
                     /protein_id="WP_072644307.1"
                     /translation="MAVYTSETKKFLDSVSHDKTWWTSRYNPADDVPVSGIYRCTVCGK
                     EITSNKDDPFPPQNHHQHSQSQAIKWQLIVRTDTQGNGCGSK"
                     /name="protein L"
     gene            complement(3094..3510)
                     /locus_tag="C7V14_RS00025"
                     /old_locus_tag="C7V14_00025"
     CDS             complement(3094..3510)
                     /locus_tag="C7V14_RS00025"
                     /old_locus_tag="C7V14_00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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_057103209.1"
                     /translation="MSDQKNNLDLQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNILTPDLNAKLNEK"
                     /name="helix-turn-helix domain-containing protein"
     Typing          1268..1349
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.857"
                     /coverage="98.0"
                     /evalue="1.43e-25"
     Typing          complement(1641..1725)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.393"
                     /coverage="87.0"
                     /evalue="5.15e-16"
     Typing          complement(444..967)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.604"
                     /coverage="99.0"
                     /evalue="7.85e-161"
ORIGIN
        1 tatggcgata acctacagat aatcaaaggt tattactcag agcgtcagga atgtgcaatg
       61 acctttaatg aggggcatcc gccatcaaaa acggatagaa caacggtctg gaagttagaa
      121 gaaaagcaga ccgacgttag aatggcttta gaaatgtatc gcgatgcgat ccgtggtgag
      181 gcagaacaat tggttctctg tactaacgac tcagatatga taccgccaat agaaatgata
      241 aaagccgatc gacctgagtt aaaaatagga attgtagtgc caagggaaca agatactagt
      301 cgagtgatta gtagtctggc tagtttaggg gattggagct tgccatatgt atcctatgaa
      361 gccttaagat tagctttatt gccagataaa gtccccacta ggcgaaagcc aatactgaag
      421 ccaaatcact ggtaaacagc cggatcttct tgtgatcctt ttactctcgt cgtaatctca
      481 tgtcctgcaa acaaaaaaac caccgctacc aacggtggtt tgtttgccgg aatcaagagc
      541 taccaactct tttttccgaa ggtaactggc tttcacggag cgcagatacc aaaactgtcc
      601 ttccagtgta gccgcagtca ggccatcact tcaagaactc tgtagaagca cttctactac
      661 tctgctccgt gaatcctgtt accaatggct gctgccagtg gcgataagtc gtgtctttcc
      721 ggattggact caagacgata gttaccggaa aaggcgcagc agtcggactg aacggggggt
      781 tcgtgcatac agtccagctt ggagcgaact gcctacccgg aactgagtgt caggcgtgga
      841 atgagacaaa cgcggccata acagcggagt gacaccggta aaccgaatgg caggaacagg
      901 agagcgcacg agggagccac cagggggaaa cgcctggtat ctttaagtcc tgtcgggttt
      961 cgccacctct gacttgagcg tcgatttttg tgatgctcgt caggggggcg aagcctatgg
     1021 aaaaacgcca ccggcgctgc ctttttccgg gtttcgtctt gttgctcaca tgttctttcc
     1081 ggcgttatcc tcggattctg tggataactg tattaccatc tttgagtgag cagacaccgc
     1141 tcgccgcagc cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aagagcgcct
     1201 gaacaggcat attctcctta cgcatctgtg cggcatttca ctccggatat ggcaaacttt
     1261 tcatacaatc cgcactgatg ctgcatgatt aagcccgtat acactccgct atctctacgt
     1321 gactggttca gggcttcgcc ccgaacccca ctgacgcgcc ctgacgggct tgtctgctgc
     1381 cgaaaacgct cgcggacaag ccgtgagcgc ctccgtcagc ttcgttatgt ccctgtttca
     1441 ctttcggtct caaagcgaac ctggatgctg ttctggagct cttccgcgag ttcgtgcagt
     1501 cgttcgcaca tggtcgcctg ttcgtcggca tccagagcat ccagtttttc aagtagtgtc
     1561 aggctctggc ttttgataaa tcgcgccata ttcagcgcaa tttgttgctg tttgttcacc
     1621 ttccgttgtt ctccgtcagt accgggtgtc gggtggaccc tgaccaggtg gtaattgtaa
     1681 gacgttgcgg gcgacggtat tacaattgca catcctgtcc tgtttcttta ggggtcagtt
     1741 tggatataga gaattattgt acggtaagcc tgttttttga acagacttac ctatagcaat
     1801 agggtgtact cccgcgctat acggcatttt cagaggtttg accttaatcg gataacctaa
     1861 atgcgatact gcaagagcga caacttaaaa gcgatagcca ctgacgcaaa atcaacccct
     1921 tacgaaccaa gattggttaa ataatgcgct taacgtacaa aaatttccga tctccaaact
     1981 gaccccttct tcgcctctta tgtttctcga atgaatcgat ggggacagga aatgttttgt
     2041 ggccaccgcc gcttcgccgg caccacaaaa ctgtcggaca agatgtgttt ttggagtacc
     2101 gccggcacca aaaacatttc atcaggcgca gcctgatacc ctgaatttcg tacgtacgaa
     2161 attttgcttt tgttcagatc gagggcagga ttcgcaaagt gctggcgttt gtactcacat
     2221 cctttagacg ttgcgatgca ggatagggca gacgccgcaa aatgacgtca tttgcggtat
     2281 ctgccccgaa aacagaatgt tttctcctga gcctgcagct ggctctcaga acccctaccg
     2341 cctcgcaaag ctcgttgctc aacgcctcac gaccgcacag taaactgtgc acccgttcac
     2401 cgttatcgat ggggttcagc gagccttttg agcagttcgc aggattttag ccgctaaaat
     2461 tccggccagg catgttcgtg catagccatg cagatgcgca gaaatcatca ggcgcgtttt
     2521 ttcacgatat ggacagggaa aggtgccgga aacgcagagg acgcggcaga aacgcgctga
     2581 gggcctctca gggggtgcgg gcaacggatg ttatgtttaa tccgtctgac cgctaggtac
     2641 aaaaaagccc ctaagggctt ttgagttatt tagaaccaca accatttcct tgcgtatctg
     2701 ttctgacaat taattgccac ttgattgcct gactttggct gtgttgatga tggttttgcg
     2761 gcggaaacgg gtcatcttta ttgctagtta tctcttttcc gcaaacagta caacgataga
     2821 tccctgatac cggtacatcg tcagctgggt tatatcgtga tgtccaccaa gttttatcgt
     2881 gagaaacact gtctaaaaat tttttagtct cagaggtgta tacagccatt tgcctttcct
     2941 ttccaaaatg tatagggcgg agggggatcc tttttataag tttggttttt tttagcgttt
     3001 ttcaatcatc tggcgatgat tgaaaaacgc taaaatagag atgctatggt aaatataagc
     3061 tgtaatggtc tgatttttaa aattatttta tggttacttt tcgttcagtt tggcattaag
     3121 gtctggcgta agaatgttta gtgacttaac taaaagagac atatcgtaaa tgtttcgccc
     3181 tttgtactta gggttgtcct tgcttgtacg aatttttgta agcaatccgt aattttcaag
     3241 ttcttggagt gagcgttgaa ctgttcttga tgaaactccc attctaaccg cgatgctctc
     3301 ttgagatgga tgtggccaat catagggttt ccaccagtgg atgattagat gaagtagcac
     3361 attgaatgtt gtgggggtca tattgagtgc gccctgcagg aagaaaaggg atgtaggaat
     3421 ggctgaccat cccatgctta acgcctcctt cccccattta gattcaagtg tctgtttttg
     3481 aaggtctaaa ttattttttt gatctgacat ataccaacct gctaagctga agtcttcata
     3541 gaagacttca gcttagcagg ttggtaaatt aattcatata attagtacga caccatcgcg
     3601 cttataatat cattatattt aactatactt aatctacact cacctcttgg tagcgcgatt
     3661 aagttacgca gctcccttga ggctctaaac ctccctttag gtgggcagcg attaagttac
     3721 gcgtcttcct tcaggagctt gaaaccgccc tctcggttag ttttaaccct gaggaactac
     3781 aacttaaact gtttgctaac gttagttttt gttgttaaaa ccgcctttag aggcggtttt
     3841 tttatgcgcg aaataaaatg agaacaatag tttacgtaga tgggtttaat ttttatcacg
     3901 gattggttaa gcgttcggga tataagtggt tagatctcta taaactcttt gaagaacaac
     3961 tacttccgat aagatcaaga gagtcacagt tgattcaggt gaagttcttt actgctgaga
     4021 tcaaagcaaa gtttgcttct cggggtgaat tggcgcacca ggctcagcaa gcctaccatc
     4081 gagcattagt acagatc
//
