LOCUS       NZ_CP032883             5793 bp    DNA     circular CON 17-JUN-2024
DEFINITION  Escherichia coli strain SCEC020022 plasmid p4_020022, complete
            sequence.
ACCESSION   NZ_CP032883
VERSION     NZ_CP032883.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06909177
            Assembly: GCF_002165095.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5793)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Escherichia coli strain SCEC020022
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5793)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-OCT-2018) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
REFERENCE   3  (bases 1 to 5793)
  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_002165095.2-RS_2024_06_17
            Annotation Date                   :: 06/17/2024 07:33:24
            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)                     :: 5,250
            CDSs (total)                      :: 5,130
            Genes (coding)                    :: 4,897
            CDSs (with protein)               :: 4,897
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 233
            CDSs (without protein)            :: 233
            Pseudo Genes (ambiguous residues) :: 0 of 233
            Pseudo Genes (frameshifted)       :: 86 of 233
            Pseudo Genes (incomplete)         :: 158 of 233
            Pseudo Genes (internal stop)      :: 40 of 233
            Pseudo Genes (multiple problems)  :: 46 of 233
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP032883.1.
            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..5793
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SCEC020022"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p4_020022"
                     /geo_loc_name="China: Sichuan"
                     /collection_date="2016-10"
     gene            complement(join(5679..5793,1..44))
                     /locus_tag="C7V31_RS27835"
     CDS             complement(join(5679..5793,1..44))
                     /locus_tag="C7V31_RS27835"
                     /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"
     gene            complement(713..904)
                     /locus_tag="C7V31_RS00705"
                     /old_locus_tag="C7V31_00705"
     CDS             complement(713..904)
                     /locus_tag="C7V31_RS00705"
                     /old_locus_tag="C7V31_00705"
                     /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_000165985.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            968..1291
                     /locus_tag="C7V31_RS00710"
                     /old_locus_tag="C7V31_00710"
     CDS             968..1291
                     /locus_tag="C7V31_RS00710"
                     /old_locus_tag="C7V31_00710"
                     /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            1500..>1931
                     /locus_tag="C7V31_RS27840"
                     /pseudo=""
     CDS             1500..>1931
                     /locus_tag="C7V31_RS27840"
                     /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            1969..2487
                     /locus_tag="C7V31_RS27155"
     CDS             1969..2487
                     /locus_tag="C7V31_RS27155"
                     /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_052918199.1"
                     /translation="MSNLLRTGAEFEKKLKERAESTEKMLNNEFRRLGESVSEAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDMLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQANLEDIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPCGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            2494..2748
                     /locus_tag="C7V31_RS27160"
     CDS             2494..2748
                     /locus_tag="C7V31_RS27160"
                     /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_040088071.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3142..4275)
                     /locus_tag="C7V31_RS27165"
     CDS             complement(3142..4275)
                     /locus_tag="C7V31_RS27165"
                     /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_072647583.1"
                     /translation="MKINSIQWPVTFFATSFGAGIFFLPQTVGPKVIGTHGTITILILS
                     SLVSLLGQFTFYRFILITDKKEYVSSAILFIGKKAANAISIAFLLSMLLIAIINITTMI
                     NIICFSLSLNGSERIFVSLIISATLGSSFIFFNSKIEHLASGIAFPSLLIVLFLSIYFY
                     SHPAHPHSTEIQNISTSNLLTLFPVVLFSFNFSPCIQRFAQNKKDTAGDLRFFMFGILL
                     ILIFISFIVFSLSNIFSPSDIKNMREINSDALSYSANVTKNSFVAYISILTMILITSGA
                     YTGTLTGVVDTIVSLGFKNKTLIVFVVSVITFIAGEANFEIIKVIAALSTPIIAITVFI
                     IPSAFFLKTNCNSIFRKIMMTLNLLIGIGICFLAIIL"
                     /name="hypothetical protein"
     gene            complement(4287..5177)
                     /locus_tag="C7V31_RS00730"
                     /old_locus_tag="C7V31_00730"
     CDS             complement(4287..5177)
                     /locus_tag="C7V31_RS00730"
                     /old_locus_tag="C7V31_00730"
                     /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_021512263.1"
                     /translation="MPDLEIMPLQSPDFYKKNKRAIYEGYKCNCTKDWKKEDRFVVYKA
                     DCTGIDEIINTEISDDNIDTVIKLAEKYTSDKIIISGGHTVVNLNDRFSVSNEVEKSAK
                     FCIDYIIKSTHELNIKPDFLMEINDFYMEKSNGEDIDGGNIYRKLATSPYIIPEVINNY
                     IIEKQNQHNIKINCFYVSEKNMADRFKRHIKRKEKEKPFFKENNSVFMNVDGSSFEVIK
                     NNKPTCAAGNAATFRSIRYKISSNKTFDNYTSHIGVFPLCSMANVINGYKAAASFYSNF
                     NLPCLLIFFGTSCFK"
                     /name="hypothetical protein"
     gene            5354..5442
                     /locus_tag="C7V31_RS00735"
                     /old_locus_tag="C7V31_00735"
     tRNA            5354..5442
                     /locus_tag="C7V31_RS00735"
                     /old_locus_tag="C7V31_00735"
                     /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:5388..5390,aa:Lys,seq:ctt)
                     /name="tRNA-Lys"
     Typing          543..628
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.701"
                     /coverage="100.0"
                     /evalue="1.86e-34"
     Typing          complement(2..521)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.656"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          1282..2852
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.756"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccggataagg cgcagcggtc gggctgaacg gggggttcgt gcacacagcc cagcttggag
       61 cgaacgacct acaccgaact gagataccaa cagcgtgagc tatgagaaag cgccacgctt
      121 cccgaaggga gaaaggcgga gaggtatccg gtaagcggca gggtcggaac aggagagcgc
      181 acgagggagc ttccaggggg aaacgcctgg tatctttata gtcctgtcgg gtttcgccac
      241 ctctgacttg agcgtcgatt tttgtgatgc tcgtcagggg ggcggagcct atggaaaaac
      301 gccaccggcg cggccttttt tcggggcctc ttttttgctc acatgttttt tccggcgtta
      361 tcccctgatt ctgtggataa ccgtatatcc gtctttgagt gagctgatac cgctcgccgc
      421 agccgaacga ccgagcgcag cgagtcagtg agcgaggaag cggaagagcg cctgatgcgg
      481 tattttctcc ttacgcatct gtgcggtatt tcacaccgca tatggtgcac tctcagtaca
      541 atctgctctg atgccgcata gttaagccag tatacactcc gctatcgcta cgtgactggg
      601 tcagggctgc gccccgacac ccgctaaaac ctgctgacgc gccctgacgg gcttgtcagc
      661 tcccggcatc cgctcacaga caagctgtga ccgtctccgg gagctgcatg tgtcagaggt
      721 tttcaccgtc atccccgaag cgtgcgaggc agctgcggta aagctcatcg gcgtggtcgt
      781 gaagcgattc acagatgtct gcctgttcat ccgcgtccag ttcgttgagc ttctccagca
      841 gcgttaatgt ctggcttctg ataaagcgcg ccatgttaag ggctgttttt tcctgtttag
      901 tcactgatgc ctccgtgtaa gggggatttc tgttcatggg gtaatgatac cgatgaaacg
      961 cgagaggatg ctcacgatac gggttactga tgatgaacat gcccggttac ttgaacgctg
     1021 tgagggtaaa caactggcgg tatggatgcg gcgggtctgc ctgggggagc cggttgcccg
     1081 ttccgggagg ctgccgacac tggcaccgcc gttactgcgt cagctggccg ccatcggaaa
     1141 taacctgaat cagacagcga ggaaggtgaa cagcgggcag tggtcttccg gtgaccgggt
     1201 tcaggtggtg gccgcactga tggccatcgg ggatgagctg cgccggctgc gtctggccgt
     1261 cagggaacag ggggcgcggg atgatagtta aatttcatgc caggggaaaa ggtggtggca
     1321 gtggtccggt tgattacctg ctggggaggg agcgtaaccg cgaaggcgca acggtgcttc
     1381 agggtaatcc ggaagaagtc cgggaactca tcgatgccac gccatttgcg aagaaataca
     1441 cgtccggtgt tctgtcgttc gcggagaagg aactgccgcc gggaggacgt gaaaaagtga
     1501 tggcgagctt tgagcgtgta ctgatgcccg gtctcgaaaa aaatcagtac agcatcctgt
     1561 gggtggagca ccaggacaag ggacggcttg agctgaattt tgtcattccg aatatggagc
     1621 tacagaccgg aaaacgcctc cagccgtact acgaccgggc agacaggccg agaattgatg
     1681 cctggcagac gctggtgaat caccattatg ggctgcatga ccccaacgcc ccggagaacc
     1741 gccggacgct gactctctct gataacctgc cggaaacgaa acaggcgctt gctgagagcg
     1801 ttacacgggg gcttgatgtg ctttaccgtg ccggagagat aaaagaccgt caggatgtga
     1861 ttcaggcact cacagatgtg ggagttgagg ttgtcagggt gacgcgaagc agtatcagca
     1921 ttgcagaccc gaacggcggg aggaatatca gactgaaagg agcgttttat gagcaatctt
     1981 ttacggacgg gcgcggagtt cgagaaaaag ctgaaagaga gagccgaatc tacagagaaa
     2041 atgctgaaca acgagttcag gaggctcggc gaatctgtaa gcgaggctgt gacatcaaac
     2101 gagacgaaaa tcaaagacgc tatagccctg ttcaccgcct cgacagagga gtcgctgaaa
     2161 aaacaccggg aaggggtgaa agaggcgatg atgcagcaca ggaaggacat gttaaagctg
     2221 gcagggaata cgggcatgat gttactgggg atagtctttc tcctgtttac cgcgagtggc
     2281 gggacgctct ggtatcttgg cgggaggata caggcgaacc tggaagatat caggaagcag
     2341 gaagagacat tgcagaaact gaacgcgaag acatggggcg tggagtttgt gcaggacggg
     2401 aacaggaaat tccttgtcct tccgtgcggg aaatcagcgg aggtgattcc ctttcagggg
     2461 aaagagtggg tacatctgaa ggagtgacac agagtgacag agctggaaat acatttgctg
     2521 aacgccttag agcagctgca acaggactat atgcagcggc tgagcgaatg ggagagcgcc
     2581 ttcgtggaat tgcagaagat gttttcgctt acgcaacggg acaacgcgat gctgaacgag
     2641 cgggtcatgc agttgagtca gcaggtgcag cacttgagcg agcagacaga acgcttgagc
     2701 gagcagacag aacgcttgag ccagttatac agcgagaact ggagataaga gaggaacggt
     2761 tgatacagga gcgcgaacat gtgttatccc tggaacggga gcgtcagccg gaaatacagg
     2821 aacgcacgct ggatggccct tcgctgggat ggtgaaacca tgaaaaatgg cagcttcagt
     2881 ggattaagtg gggggaatgt ggcctgtacc atctggttgc ataggtattc atacggttaa
     2941 aatttatcag gcgcgatcgc ggcatttttt cgggtggttt gttgccattt ttacctgtct
     3001 gctgccgtga tcgcgctgaa cgcgttttag cggtgcgtac aatattgtcg ttatgttaaa
     3061 tggtttggat gatcccccca ttttccacat ttggttgtga cgattaagat aaactcgtca
     3121 gaatatttgg gtgaggaata atcataatat gatggctagg aagcatattc caatacctat
     3181 gagcaggttc aacgtcatca ttatttttct aaaaatactg ttacaatttg tttttaaaaa
     3241 gaatgctgat gggataatga atactgttat tgctataatt ggggttgata atgcagcaat
     3301 aacttttata atttcgaaat tggcttcgcc tgctataaat gtgataacag atacgacaaa
     3361 aacgattaat gttttgtttt taaatccaag ggatactatt gtatcaacaa cgcctgttag
     3421 tgtacctgta tatgcaccgc tggtaattaa aatcatggtt aatatggaaa tgtaagcaac
     3481 gaaactattt tttgttacgt tggcgctata tgataatgca tcgctgttaa tctcgcgcat
     3541 gttttttatg tctgaaggtg agaatatatt gcttaatgag aacacgatga atgagataaa
     3601 tattaaaatt aatagtatcc caaacatgaa aaaacgtaaa tcaccggctg tatctttttt
     3661 gttttgagca aagcgttgta tacatggtga aaaattaaaa ctaaataaaa caactggaaa
     3721 tagagtaagt aaattacttg tactaatatt ttgtatttct gtagaatgtg gatgtgctgg
     3781 atgtgaatag aaatatatag ataagaacag tacaataagc aaagatggaa atgctattcc
     3841 tgatgcgaga tgctctatct ttgaattaaa aaagataaaa gaagaaccaa gggttgcaga
     3901 aataatcagt gacacaaata ttcgctctga accatttaga cttaggctaa agcaaataat
     3961 atttatcatt gttgttatgt ttataattgc tattaacagc attgataata ggaatgcaat
     4021 actgatagca tttgcggctt tttttccgat aaataatatg gcagaactaa cgtattcttt
     4081 tttgtctgta attaaaatga atctataaaa tgtaaattgc cctaataaag ataccaaaga
     4141 tgataaaatc agtattgtta ttgttccgtg agttcctatg actttggggc ctacagtctg
     4201 gggtaggaaa aaaatccctg ccccaaatga tgttgcaaag aatgttactg gccattggat
     4261 gctatttatc ttcatttttg aacctttcat ttgaagcatg atgttccaaa gaaaataagt
     4321 aaacatggaa gattaaaatt actataaaaa gatgctgctg ctttatagcc attaattaca
     4381 ttagccattg agcacaatgg gaatacacct atgtgtgatg tgtaattgtc aaatgtcttg
     4441 ttcgatgaaa ttttatatcg aatcgagcga aatgtagctg cgttacctgc tgcacaagtc
     4501 ggtttgttat tttttatcac ttcaaatgat gaaccatcga cattcataaa aacagagttg
     4561 ttttctttaa aaaatggctt ttctttttct tttcttttaa tgtgtcgttt aaaacgatct
     4621 gccatgtttt tttcactaac atagaaacaa tttattttta tattatgctg attctgtttc
     4681 tctataatat agttatttat tacttctggt attatatagg gtgatgtggc tagttttcta
     4741 taaatattac caccatcgat atcttcgcca tttgattttt ccatgtagaa atcatttatt
     4801 tccatgagga aatcaggttt tatatttagc tcatgtgttg attttattat gtagtcaatg
     4861 caaaatttag ccgatttttc aacctcatta ctaactgaaa aacggtcatt caaattcaca
     4921 acagtatgtc caccagatat aataatcttg tctgatgtgt atttttcggc tagttttatt
     4981 acagtatcta tgttgtcatc tgatatttct gtgtttatta tctcatcgat tcctgtgcaa
     5041 tctgctttgt atacaacaaa tctgtcttct tttttccagt cttttgtaca attacattta
     5101 tagccctcgt atattgctct tttgtttttt ttataaaaat ctggactttg taagggcatt
     5161 atttctaggt ctggcatagt tatgcttcct ttgtcacaaa gaaaatattt tgctaattat
     5221 gacttataca tatcaatgat agagatcatg ttagtgtttg atcattgatg tctcctttat
     5281 ttatgtgatg cgtctctatt ttttctctta tagtgtcttg gatgttattt gttaaatatg
     5341 tattgttttt tgtggagagg tgggcgagtg gtctaagtca gggctctctt gaggccatat
     5401 gcgacaagcg tatcgtaggt tcgaatccta ccctctccgc cattttgttg atcgtttccc
     5461 ccaccatttg ttgaattgag aggggttttg aaaaaagatc aaaggatcct cttgagatcc
     5521 tttttttctg cgcgtaatct gctgcctgta aacaaaaaaa ccaccgctac caacggtggt
     5581 tcgtttgccg gaatcaagag ctaccaactc tttttcccga aggtaactgg cttggtggag
     5641 cgcagatacc aaatactgtc cttctagtgt agcctcagtt aggccaccac ttcaagaact
     5701 cttaatatct caatccacct tgtccagtta ccaatggctg ctgccagtgg cgttaaggcg
     5761 tgtcttaccg ggttggactc aagacgatag tta
//
