LOCUS       NZ_CP043339             5773 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain WCHEC115106 plasmid p4_115106, complete
            sequence.
ACCESSION   NZ_CP043339
VERSION     NZ_CP043339.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12623214
            Assembly: GCF_022559065.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5773)
  AUTHORS   Hu,Y., Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain WCHEC115106
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5773)
  AUTHORS   Hu,Y., Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-AUG-2019) 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_022559065.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:21:23
            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)                     :: 5,139
            CDSs (total)                      :: 5,017
            Genes (coding)                    :: 4,754
            CDSs (with protein)               :: 4,754
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 263
            CDSs (without protein)            :: 263
            Pseudo Genes (ambiguous residues) :: 0 of 263
            Pseudo Genes (frameshifted)       :: 87 of 263
            Pseudo Genes (incomplete)         :: 171 of 263
            Pseudo Genes (internal stop)      :: 54 of 263
            Pseudo Genes (multiple problems)  :: 41 of 263
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP043339.1.
            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..5773
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WCHEC115106"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p4_115106"
                     /geo_loc_name="China: Chengdu, Sichuan"
                     /collection_date="2017"
     gene            complement(508..699)
                     /locus_tag="FZC46_RS25510"
                     /old_locus_tag="FZC46_25800"
     CDS             complement(508..699)
                     /locus_tag="FZC46_RS25510"
                     /old_locus_tag="FZC46_25800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_100783622.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            763..1086
                     /locus_tag="FZC46_RS25515"
                     /old_locus_tag="FZC46_25805"
     CDS             763..1086
                     /locus_tag="FZC46_RS25515"
                     /old_locus_tag="FZC46_25805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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_001430281.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGRLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1295..>1726
                     /locus_tag="FZC46_RS25520"
                     /old_locus_tag="FZC46_25810"
                     /pseudo=""
     CDS             1295..>1726
                     /locus_tag="FZC46_RS25520"
                     /old_locus_tag="FZC46_25810"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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            1764..2282
                     /locus_tag="FZC46_RS25525"
                     /old_locus_tag="FZC46_25815"
     CDS             1764..2282
                     /locus_tag="FZC46_RS25525"
                     /old_locus_tag="FZC46_25815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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_072665564.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTTSG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            2289..2522
                     /locus_tag="FZC46_RS25530"
                     /old_locus_tag="FZC46_25820"
     CDS             2289..2522
                     /locus_tag="FZC46_RS25530"
                     /old_locus_tag="FZC46_25820"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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_004026237.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2916..4049)
                     /locus_tag="FZC46_RS25535"
                     /old_locus_tag="FZC46_25830"
     CDS             complement(2916..4049)
                     /locus_tag="FZC46_RS25535"
                     /old_locus_tag="FZC46_25830"
                     /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_123863911.1"
                     /translation="MKINSIQWPVTFFATSFGAGIFFLPQTVGPKVIGTHGTITILILS
                     SLASLLGQFTFYRFILITDKKEYVSSAILFIGKKAANAISIAFLLSMLLIAIINITTMI
                     NIICFSLSLNGSERIFVSLIISATLGSSFIFFNSKIEHLASGIAFPSLLIVLFLSIYFY
                     SHPAHPHSTEIQNISTSNLLTLFPVVLFSFNFSPCIQRFAQNKKDTAGDLRFFMFGILL
                     ILIFISFIVFSLSNIFSPSDIKNMREINSDALSYSANVTKNSFVAYISILTMILITSGA
                     YTGTLTGVVDTIVSLGFKNKTLIVFVVSVITFIAGEANFEIIKVIAALSTPIIAITVFI
                     IPSAFFLKTNCNSIFRKIMMTLNLLIGIGICFLAIIL"
                     /name="hypothetical protein"
     gene            complement(4061..4951)
                     /locus_tag="FZC46_RS25540"
                     /old_locus_tag="FZC46_25835"
     CDS             complement(4061..4951)
                     /locus_tag="FZC46_RS25540"
                     /old_locus_tag="FZC46_25835"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015376142.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_223045840.1"
                     /translation="MPDLEIMPLQSPDFYKKNKRAIYEGYKCNCTKDWKKEDRFVVYKA
                     DCTGIDEIINTEISDDNIDTVIKLAEKYTSDKIIISGGHTVVNLNDRFSVSNEVEKSAK
                     FCIDYIIKSTHELNIKPDFLMEINDFYMEKSNGEDIDGGNIYRKLATSPYIIPEVINNY
                     IIEKQNQHNIKINCFYVSEKNMADRFKRHIKRKEKEKPFFKENNSVFMNVDGSSFEVIK
                     NNKPTCAAGNAATFRSIRYKISSNKTFDNYTSHIGVFPLCSMANVINGYKAPASFYSNF
                     NLPCLLIFFGTSCFK"
                     /name="hypothetical protein"
     gene            5128..5216
                     /locus_tag="FZC46_RS25545"
                     /old_locus_tag="FZC46_25840"
     tRNA            5128..5216
                     /locus_tag="FZC46_RS25545"
                     /old_locus_tag="FZC46_25840"
                     /product="tRNA-Lys"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.12"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:5162..5164,aa:Lys,seq:ctt)
                     /name="tRNA-Lys"
     gene            complement(5453..5611)
                     /locus_tag="FZC46_RS25755"
     CDS             complement(5453..5611)
                     /locus_tag="FZC46_RS25755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_072672540.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHALTPLAAAIGNWTRWIEIL
                     RVLEVVA"
                     /name="replication initiation protein"
     Typing          338..423
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          complement(2..312)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.794"
                     /coverage="99.0"
                     /evalue="1.46e-113"
     Typing          complement(5502..5773)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.505"
                     /coverage="82.0"
                     /evalue="2.54e-115"
     Typing          1077..2626
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.374"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctggtatctt tatagtcctg tcgggtttcg ccacctctga cttgagcgtc gatttttgtg
       61 atgctcgtca ggggggcgga gcctatggaa aaacggcatc ggcgctggct tgttccggtg
      121 ctttgctttt tgctcacatg ttctttccgg cgttatcccc tgattctgtg gataatcgta
      181 ttatcgcctt tgagtgagct gacaccgctc gccgcagtcg aacgaccgag cgtagcgagt
      241 cagtgagcga ggaagcggaa aagcgcctgg acgcgcattt tctccttacg catctgtgcg
      301 gaatttcaca cccggcatga ggcacttttc atacaatctg cactgatgcc gcatagttaa
      361 gccagtatac actccgctat cgctacgtga ctgggtcatg gctgcgcccc gacacccgct
      421 aaaacctgct gacgcgccct ggagggcttg tctgctcccg gcatccactc acaggcaagc
      481 tgtgagcgtc tccggaagct gcttgtgtca gagggtttca ccgtcatccc cgaagcgtgc
      541 aaggcagctg cggtaaagct catcggcgtg gtcgtgaagc gattcacaga tatctgcctg
      601 ttcatccgcg tccagttcgt tgagcttctc cagcagcgtt aatgtctggc ctctgatgaa
      661 gcgcgccatg ttaagggcgg ttttttcctg tttagtcact gatgcctccg tgtaaggggg
      721 atttctgttc atggggtaat gataccgatg aaacgcgaga ggatgctcac gatacgggtt
      781 actgatgatg aacatgcccg gttacttgaa cgctgtgagg gtaaacaact ggcggtatgg
      841 atgcggcggg tctgcctggg ggagccggtt gcccgttccg ggaggctgcc gacactggca
      901 ccgccgttac tgcgtcagct ggccgccatc ggaaataacc tgaatcagac agcccgtaag
      961 gtgaacagcg ggcagtggtc ttccggtgac cgggttcagg tggtggccgc actgatggcc
     1021 atcggggatg agctgcgccg gctgcgtctg gccgtcaggg aacagggggc gcgggatgat
     1081 agttaaattt catgccaggg gaaaaggtgg tggcagtggt ccggttgatt acctgctggg
     1141 gagggagcgt aatcgcgaag gcgcaacggt gcttcagggt aatccggaag aagtccggga
     1201 actcatcgat gccacgccat ttgcgaagaa atacacgtcc ggtgttctgt cgttcgcgga
     1261 gaaggaactg ccgccgggag gacgtgaaaa agtgatggcg agctttgagc gtgtactgat
     1321 gcccggtctc gaaaaaaatc agtacagcat cctgtgggtg gagcaccagg acaagggacg
     1381 gcttgagctg aattttgtca ttccgaacat ggagctacag accggaaaac gcctccagcc
     1441 gtactacgac cgcgcagaca ggccgagaat tgatgcctgg cagacgctgg tgaatcacca
     1501 ttacggactg catgacccca acgccccgga gaaccgccgg acgctgaccc ttcctgataa
     1561 cctgccggaa acgaaacagg cacttgctga gagcgttaca cgcggtatag acgcacttta
     1621 ccatgccgga gagataaaag gccgtcagga tgtgattcag gcgctcacag aggcggggct
     1681 tgaagtggtc agggtgacgc gaagcagtat cagcattgca gacccgaacg gcgggaggaa
     1741 tatcaggctg aaaggagcat tttatgagca atcttttaca gacgggcgcg gagttcgaga
     1801 aaaagctgaa agagagagcc gaatctacag agaaaatgct gaacgacgag ttcaggaagc
     1861 tcggcgagtc tgtcagcgag gctgtgacct caaacgagac gaaaatcaga gacgctatag
     1921 ccctgttcac agcctcgaca gagaaatcgc tggaaaaaca ccgggaaggg gtgaaagagg
     1981 cgatgatgca gcacaggaag gacgtgttaa agctggcagg gaatacgggc atgatgttac
     2041 tggggatagt ctttctcctg tttaccacga gtggcgggac gctctggtat cttggcggac
     2101 ggatacagac gaacctggaa gaaatcagga agcaggaaga gacattgcag aaactgaacg
     2161 cgaagacatg gggcgtggag tttgtgcagg acgggaacag gaaattcctt gtccttccgt
     2221 acgggaaatc agcggaggtg attccctttc aggggaaaga gtgggtacat ctgaaggagt
     2281 gacacagagt gacagagctg gaaatacatt tgctgaacgc cttagagcag ctgcaacagg
     2341 actatatgca gcggctgagc gaatgggaga gcgccttcgt ggaattgcag aagatgtttt
     2401 cgcttacgca acgggacaac gcgatgctga acgagcgggt catgcagttg agtcagcagg
     2461 tgcagcactt gagcgagcag acagaacgct tgagccagtt atacagcgag aactggagat
     2521 aagagaggaa cggttgatac aggagcgcga acatgtgtta tccctggaac gggagcgtca
     2581 gccggaaata caggaacgca cgctggatgg cccttcgctg ggatggtgaa accatgaaaa
     2641 atggcagctt cagtggatta agtgggggga atgtggcctg taccatctgg ttgcataggt
     2701 attcatacgg ttaaaattta tcaggcgcga tcgcggcatt ttttcgggtg gtttgttgcc
     2761 atttttacct gtctgctgcc gtgatcgcgc tgaacgcgtt ttagcggtgc gtacaatatt
     2821 gttgttatgt taaatggttt ggatgatccc cccattttcc acatttggtt gtgacgatta
     2881 agataaactc gtcagaatat ttgggtgagg aataatcata atatgatggc taggaagcat
     2941 attccaatac ctatgagcag gtttaacgtc atcattattt ttctaaaaat actgttacaa
     3001 tttgttttta aaaagaatgc tgatgggata atgaatactg ttattgctat aattggggtt
     3061 gataatgcag caataacttt tataatttcg aaattggctt cgcctgctat aaatgtgata
     3121 acagatacga caaaaacgat taatgttttg tttttaaatc caagggatac tattgtatca
     3181 acaacgcctg ttagtgtacc tgtatatgca ccgctggtaa ttaaaatcat ggttaatatg
     3241 gaaatgtaag caacgaaact attttttgtt acgttggcgc tatatgataa tgcatcgctg
     3301 ttaatctcgc gcatgttttt tatgtctgaa ggtgagaata tattgcttaa tgagaacacg
     3361 atgaatgaga taaatattaa aattaatagt atcccaaaca tgaaaaaacg taaatcaccg
     3421 gctgtatctt ttttgttttg agcaaagcgt tgtatacatg gtgaaaaatt aaaactaaat
     3481 aaaacaactg gaaatagagt aagtaaatta cttgtactaa tattttgtat ttctgtagaa
     3541 tgtggatgtg ctggatgtga atagaaatat atagataaga acagtacaat aagcaaagat
     3601 ggaaatgcta ttcctgatgc gagatgctct atctttgaat taaaaaagat aaaagaagaa
     3661 ccaagggttg cagaaataat cagtgacaca aatattcgct ctgaaccatt tagacttagg
     3721 ctaaagcaaa taatatttat cattgttgtt atgtttataa ttgctattaa cagcattgat
     3781 aataggaatg caatactgat agcatttgcg gctttttttc cgataaataa tatggcagaa
     3841 ctaacgtatt cttttttgtc tgtaattaaa atgaatctat aaaatgtaaa ttgccctaat
     3901 aaagatgcca aagatgataa aatcagtatt gttattgttc cgtgagttcc tatgactttg
     3961 gggcctacag tctggggtag gaaaaaaatc cctgccccaa atgatgttgc aaagaatgtt
     4021 actggccatt ggatgctatt tatcttcatt tttgaacctt tcatttgaag catgatgttc
     4081 caaagaaaat aagtaaacat ggaagattaa aattactata aaaagatgct ggtgctttat
     4141 agccattaat tacattagcc attgagcaca atgggaatac acctatgtgt gatgtgtaat
     4201 tgtcaaatgt cttgttcgat gaaattttat atcgaatcga gcgaaatgta gctgcgttac
     4261 ctgctgcaca agtcggtttg ttatttttta tcacttcaaa tgatgaacca tcgacattca
     4321 taaaaacaga gttgttttct ttaaaaaatg gcttttcttt ttcttttctt ttaatgtgtc
     4381 gtttaaaacg atctgccatg tttttttcac taacatagaa acaatttatt tttatattat
     4441 gctgattctg tttctctata atatagttat ttattacttc tggtattata tagggtgatg
     4501 tggctagttt tctataaata ttaccaccat cgatatcttc gccatttgat ttttccatgt
     4561 agaaatcatt tatttccatg aggaaatcag gttttatatt tagctcatgt gttgatttta
     4621 ttatgtagtc aatgcaaaat ttagccgatt tttcaacttc attactaact gaaaaacggt
     4681 cattcaaatt cacaacagta tgtccaccag atataatgat cttgtctgat gtgtattttt
     4741 cggctagttt tattacagta tctatgttgt catctgatat ttctgtgttt attatctcat
     4801 cgattcctgt gcaatctgct ttgtatacaa caaatctgtc ttcttttttc cagtcttttg
     4861 tacaattaca tttatagccc tcgtatattg ctcttttgtt ttttttataa aaatctggac
     4921 tttgtaaggg cattatttct aggtctggca tagttatgct tcctttgtca caaagaaaat
     4981 attttgctaa ttatgactta tacatatcaa tgatagagat catgttagtg tttgatcatt
     5041 gatgtctcct ttatttatgt gatgcgtctc tattttttct cttatagtgt cttggatgtt
     5101 atttgttaaa tatgtattgt tttttgtgga gaggtgggcg agtggtctaa gtcagggctc
     5161 tcttgaggcc atatgcgaca agcgtatcgt aggttcgaat cctaccctct ccgccatttt
     5221 gttgatcgtt tcccccacca tttgttgaat tgagaggggt tttgaaaaaa gatcaaagga
     5281 tcctcttgag atcctttttt tctgcgcgta atctgctgcc tgtaaacaaa aaaaccaccg
     5341 ctaccaacgg tggttcgttt gccggaatca agagctacca actctttttc ccgaaggtaa
     5401 ctggcttggt ggagcgcaga taccaaatac tgtccttcta gtgtagcctc agttaggcca
     5461 ccacttcaag aactcttaat atctcaatcc accttgtcca gttaccaatg gctgctgcca
     5521 gtggcgttaa ggcgtgtctt accgggttgg actcaagacg atagttaccg gataaggcgc
     5581 agcggtcggg ctgaacgggg ggttcgtgca cacagcccag cttggagcga acgacctaca
     5641 ccgaactgag ataccaacag cgtgagctat gagaaagcgc cacgcttccc gaagggagaa
     5701 aggcggacag gtatccggta agcggcaggg tcggaacagg agagcgcacg agggagcttc
     5761 cagggggaaa cgc
//
