LOCUS       NZ_CP032420             2959 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain SCEC020001 plasmid p1_020001, complete
            sequence.
ACCESSION   NZ_CP032420
VERSION     NZ_CP032420.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06909172
            Assembly: GCF_002165115.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2959)
  AUTHORS   Liu,L., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain SCEC020001
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2959)
  AUTHORS   Liu,L., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-SEP-2018) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
REFERENCE   3  (bases 1 to 2959)
  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. 0.4.6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Illumina HiSeq; MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002165115.2-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 01:51:24
            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)                     :: 4,938
            CDSs (total)                      :: 4,820
            Genes (coding)                    :: 4,552
            CDSs (with protein)               :: 4,552
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 268
            CDSs (without protein)            :: 268
            Pseudo Genes (ambiguous residues) :: 0 of 268
            Pseudo Genes (frameshifted)       :: 96 of 268
            Pseudo Genes (incomplete)         :: 174 of 268
            Pseudo Genes (internal stop)      :: 51 of 268
            Pseudo Genes (multiple problems)  :: 45 of 268
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP032420.1.
            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..2959
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SCEC020001"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p1_020001"
                     /geo_loc_name="China: Sichuan"
                     /collection_date="2016-06"
     gene            complement(join(<2957..2959,1..129))
                     /locus_tag="C7V21_RS26205"
                     /pseudo=""
     CDS             complement(join(<2957..2959,1..129))
                     /locus_tag="C7V21_RS26205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /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="replication initiation protein"
                     /name="replication initiation protein"
     gene            complement(1309..1887)
                     /locus_tag="C7V21_RS00020"
                     /old_locus_tag="C7V21_00020"
     CDS             complement(1309..1887)
                     /locus_tag="C7V21_RS00020"
                     /old_locus_tag="C7V21_00020"
                     /inference="COORDINATES: protein motif:HMM:NF025107.4"
                     /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_123906182.1"
                     /translation="MKSEIELKKTEHLSVEIPERILAIWGRSILNSGWTSVPNELLKNQ
                     SKLGIGNTELVLLINLISFMHHSDARVYPSISLLCERMNQDRRTIQRNLNKLVEMDILR
                     IKIRSTGKNSKGMTNLYDLTPLMLKLINLKIPSLNTPDEKHTCPKCGKIAISREEITKE
                     FGFRTDTNGKMRTQSWCKDCRGKKVADLP"
                     /name="helix-turn-helix domain-containing protein"
     gene            2284..2739
                     /locus_tag="C7V21_RS00025"
                     /old_locus_tag="C7V21_00025"
     CDS             2284..2739
                     /locus_tag="C7V21_RS00025"
                     /old_locus_tag="C7V21_00025"
                     /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_061350436.1"
                     /translation="MTTKFNKFELHSAFRDGKLNEKHFVDLPYLKEEQLRALASFLGAI
                     TREEPLPGKNKPSWLDDDSIKISGTDAYEDGNYWHYHCGPYPESVKLRSMTFNLGMNVA
                     GLTSAEVIHYQKLNDGTVFVVGFSPTHEPFPKSDAPHYNPLFTESDD"
                     /name="hypothetical protein"
     Typing          complement(3..496)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.237"
                     /coverage="96.0"
                     /evalue="2.76e-175"
ORIGIN
        1 catctctcgc acatcctgtt taccagtggc tgctgccagt ggcgctttgt cgtgtctttc
       61 cgggttggac tcaagttgat agttaccgga aaaggcgcag cagtcggact gaacgggggg
      121 ttcgtgcata cagtccagct tggagcgaac tgccttcccg gaatcgagtg tcaggcgtgg
      181 aatgagataa acgcggccat aacagcggaa tgacaccggt aaaccgaaag gcaggaacag
      241 gagagcgcac gagggagcca ccagggggaa acgcctggta tctttaagtc ctgtcgggtt
      301 tcgccaccac tgatttgagc gtcagattct gtgatgcttg tcaggggggc ggagcctatg
      361 gaaaatcggc aacgccgcgg cgtttttttc cccctcatcg tccctcatgg cttcatcttt
      421 tgatgtgcct gttccctccg ctcgccgcag ccgaacgacc gagcgcagcg agtcagtgag
      481 cgaggaagcg gaatatcttc gtacttatct ttggcaccgt acacgccata gctgcatttt
      541 taatgcgatg caggataggg ctaacgccgt aaagtgacgt cacctgatac ttctggatta
      601 caacagttaa agcagatgac aggatatgtt ttgtgttcac cgccagtttg tcagcgctac
      661 aaaacagcgg gacaagatgt gtttttggag taccgcccat actccaaaac gctatgacca
      721 tgctctgccc gataccctta gcaatcagtg tttgcaatct gtcccgaacc tgtttaggaa
      781 gtgtttgcaa tctgtcccga atctgtttag gaagtgtttg caatctgtcc cgaatctgtt
      841 taggaagtgt ttgcaacctg tcccgaatct gtttgctcag tgtttatagc ctgttttctc
      901 actgatttac tctgcatgtc caaggcacgt tagcgatgta tacatcgccg cgccgcaagg
      961 gtgccccttc cgaatcccgt tcatcactgc gtgctgatta atccacgtta aatccgaccc
     1021 ccttagcaat aaatccagcc atgcctgacg gcctggccaa cgcctcacgg ccgcacagta
     1081 aactgcgcac ccgtgaggcg ttattcgtga ggttaagtgg tgcttttgga cgtcctgccg
     1141 gattttagcc gctaaaatcc cggccatgca tgtgtgtgca tagccatgca gactcgcaga
     1201 aatcatcagg cgcgtttttt cacgatatag gtatagggaa gtgccggaaa cagtcatccc
     1261 gccgcagaaa tgcgctgagg gcgtctgagg gggtgcggcc aacggatgtt atggtaaatc
     1321 cgcaactttc ttgcctcgac aatctttgca ccaactttgc gttctcatct tcccattagt
     1381 gtcagttctg aatccaaact cttttgttat ttcttctctt gatatggcta ttttcccgca
     1441 ttttggacac gtatgttttt catcgggcgt atttaaagat ggtattttta ggttgattag
     1501 cttcagcatt aaaggggtga ggtcatacaa gttagtcatt cctttggagt ttttaccggt
     1561 ggaacgtatt tttatcctca gaatgtccat ttctactaac ttgtttaaat ttctctgaat
     1621 tgttcgtctg tcttgattca ttctttcgca tagaagcgaa attgatgggt acactcttgc
     1681 gtcagaatga tgcatgaaag agatcaggtt aatcaaaagt acaagctctg tgtttcctat
     1741 tcctagctta gattggtttt ttaatagttc attgggaacg gacgtccagc cagagtttaa
     1801 aatgctgcgc ccccatatgg ctaagattct ttcggggatc tctactgata agtgttctgt
     1861 tttttttagt tcgatttctg atttcaactt cggccaccaa tcataataac aatacctata
     1921 tatataggta ttgttattat gattaattat tcgggcggca tcaatgccgc ccttgtattt
     1981 gaccaaaaag gcctaatgtc tagcaccggg gaaagacctc tcttaccatc gaattgagca
     2041 agattttatc ttcccagatt tcttcaaaca taggactgac atgttggcaa acgtacgatt
     2101 tgataatcac agctgcgata cagaacgtcg tcagcagtac aaatctcgtg ctgacgaagt
     2161 gctgctctcg cgttcataca agaatcagac gcatgaagcg ttaaaatgcg attctccgaa
     2221 gtctgatgaa tcgatctttg atatgctatc tgcttactca gtaaggtaag tggaaagtgt
     2281 ttgatgacaa ccaaattcaa taagtttgag cttcattcag ctttccgaga cgggaagctg
     2341 aatgaaaagc atttcgtaga tttaccctac ctcaaagaag aacaactccg ggcattagcc
     2401 tctttcttgg gtgcgataac tcgtgaagag cctcttccag ggaaaaacaa gccttcatgg
     2461 cttgatgatg attccattaa aatttccggt actgatgctt acgaagacgg gaactactgg
     2521 cattatcatt gcggtccata tccagaatcg gtcaaactta gatcgatgac ttttaacttg
     2581 ggtatgaacg ttgctggact aacctccgca gaagtgatcc actatcaaaa actcaacgat
     2641 ggcacggtgt ttgtcgtagg cttctcccct acacatgagc ccttccctaa gtctgatgcg
     2701 ccgcattaca accctctctt caccgaatca gatgattaaa tatctgaata gtggctggta
     2761 aggatatgtt gagatttttt tctctcagct gtagtctctt ttcctgaaac gaaaaaacca
     2821 ccctggcagg tggtttttcg aaggttagtt aatcctggca gattctctaa ccgtggtaac
     2881 agtcttgtgc gagacatgtc accaaatctg tcctttcagt gtagccgcag tcaggccacc
     2941 acttcaagaa ctctcgata
//
