LOCUS       NZ_LT985311             5631 bp    DNA     circular CON 16-JUN-2024
DEFINITION  Escherichia coli strain CIP106223 plasmid RCS93_pIII, complete
            sequence.
ACCESSION   NZ_LT985311
VERSION     NZ_LT985311.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA104588852
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Cea,G.-C. and William,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-FEB-2018) Genoscope CEA, 2 rue Gaston Cremieux CP5706
            91057 Evry cedex, France, France
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_900290015.1-RS_2024_06_15
            Annotation Date                   :: 06/15/2024 04:04:36
            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)                     :: 153
            CDSs (total)                      :: 153
            Genes (coding)                    :: 135
            CDSs (with protein)               :: 135
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 18
            CDSs (without protein)            :: 18
            Pseudo Genes (ambiguous residues) :: 0 of 18
            Pseudo Genes (frameshifted)       :: 10 of 18
            Pseudo Genes (incomplete)         :: 14 of 18
            Pseudo Genes (internal stop)      :: 3 of 18
            Pseudo Genes (multiple problems)  :: 8 of 18
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LT985311.1.
            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..5631
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CIP106223"
                     /db_xref="taxon:562"
                     /plasmid="RCS93_pIII"
     gene            complement(316..1182)
                     /locus_tag="GWB16_RS00705"
                     /old_locus_tag="RCS93_PIII0001"
     CDS             complement(316..1182)
                     /locus_tag="GWB16_RS00705"
                     /old_locus_tag="RCS93_PIII0001"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(1184..2236)
                     /locus_tag="GWB16_RS00710"
                     /old_locus_tag="RCS93_PIII0003"
     CDS             complement(1184..2236)
                     /locus_tag="GWB16_RS00710"
                     /old_locus_tag="RCS93_PIII0003"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(2717..2950)
                     /locus_tag="GWB16_RS00715"
     CDS             complement(2717..2950)
                     /locus_tag="GWB16_RS00715"
                     /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_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2957..3487)
                     /locus_tag="GWB16_RS00720"
                     /old_locus_tag="RCS93_PIIICDS2960R"
     CDS             complement(2957..3487)
                     /locus_tag="GWB16_RS00720"
                     /old_locus_tag="RCS93_PIIICDS2960R"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /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_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(<3525..4223)
                     /locus_tag="GWB16_RS00805"
                     /pseudo=""
     CDS             complement(<3525..4223)
                     /locus_tag="GWB16_RS00805"
                     /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            complement(4165..4488)
                     /locus_tag="GWB16_RS00725"
                     /old_locus_tag="RCS93_PIII0006"
     CDS             complement(4165..4488)
                     /locus_tag="GWB16_RS00725"
                     /old_locus_tag="RCS93_PIII0006"
                     /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_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4553..4744
                     /locus_tag="GWB16_RS00730"
                     /old_locus_tag="RCS93_PIII0007"
     CDS             4553..4744
                     /locus_tag="GWB16_RS00730"
                     /old_locus_tag="RCS93_PIII0007"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(4839..4920)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(5377..5564)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(2614..4175)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aagaacaatt ttggtgactc gtctcgcata agacagttac ctggttaagc agtctgcaag
       61 ctgacttaac cttcgatcaa accgccctgc aaggcggttt tttcgtttac aggcagcaga
      121 ttacgcgcag aaaaaaagga tctcaagagg atcctttgat ctttttgtta caaacgtctc
      181 tatttgactc ccctgagagc gttttagcgc gcctctgacc cccttggtta cattccgaca
      241 ccagaaacgc tcccgttttt tacgtgcatt tggcacggta tcgatggagg ccggggggca
      301 atcctgaaca gaatgttact cctctgagta ttttctgtta agaaaatata cacttagcac
      361 agttacaata aatcctaccc cctgtaagaa tgtgaattgt tcatccaaaa acaaccatga
      421 caaaaataat gcaactagcg gaataaagta caacattatc cctgccaaat gaactgggag
      481 ccaacgcaag gagttcaagt aaaaacaaaa agctaaaaaa tattgtaata ttccagatga
      541 aaaaacaata atcacggatt ccaacggaag ataaattgat gatttagata taaaaataaa
      601 gagcgatgac agtataaggg agaatgtcaa ctgtccgctc aataatgtga taggctcaaa
      661 cgatttaata aggcgagacg atataacaac ataaaatgct gccgataaca caccggcaac
      721 aacaagacaa tatccaacaa tattattcga tccattactg atgtctggca aggctaccaa
      781 aatactgcca acaattgcac ctataaggaa caatataaaa tattgcgggg aattaatttt
      841 aactgagcaa ataagaacag acaacaccaa tataaacact gattcaagtg aaaaaataat
      901 tgatgcgctt cctgctgaaa taaaataaag tccgtagagt gtaaaagtat acgctaagaa
      961 tggttcaaaa acgcctgtcg cataagcaag tatcgctttt gagtttaatg ggagtttttt
     1021 tctttttata aaaagaacta tccaagatag tattactgca ctacaaatct gccagaaaaa
     1081 cacccctccg gcatctagtt cttcaactcc ttttttgctc attacgatag ctgcccccca
     1141 tgagaacgct gctaaaaaag caaaaagcat tcctttaatc atattaatca tcctctttct
     1201 cataaagggg tttgttttca aatttccttg gttgaaagga gttaaaaaac atagatgcat
     1261 catctacagg aataccaata aactctccat aataaggatc atctatagga aactcttcta
     1321 atgaaacata aaacaataca ttccagttga agatcattgg atcactattt tctatttcat
     1381 ggagcaatct ttcatcctta gttaattctc ctggaattaa tacatcagta tgataaaaac
     1441 cgctgtaata agaactatta ccggtgtgca ctgggcatcc aaaacgatcc aaattagatt
     1501 ctgaatgcca tgttgtagaa atcccttccg gatgtgaata cccaccctta ccaacagact
     1561 gaatagtcat gttacgaata tccgctaacg cttgttcttg atctttatag aaaccttttt
     1621 ctatcgccag cctcataaaa tgccccgggg catttacaga aataagtatt ccccctggta
     1681 ttcttctatc atgatttctt gttctatgag cagaagagta aaaaacatta acaccagcct
     1741 tatatatttt tagcccatct ttatcctgaa atggtacgct ttcagtataa ataacatcct
     1801 cttttattgg atagcactct ggcatatgca gcgaacaaat atatttttgt atgtccacta
     1861 actcttctga tggacgagca aaggcaagtt gtggatgaat aaaataaatg agatgcgcac
     1921 tgacctctcc tcttcttgcg cgttctttaa aacgaactct ttcattacgc aaaaaatcaa
     1981 acaaatgacc atcatcatta tatagttggg ggctatttac aatagataaa tggaaatcaa
     2041 gccctttaat tttcttgctt gccaatttac caaatacaca gggctgattg cctgacaccc
     2101 attttcttag taaatcttca attttatctt tagaagtttc gttaaagata aatgaatgaa
     2161 tattatcaat atcttttcca aatgaaaaac tggatgataa ttgtggtagt ttatttatac
     2221 gttgttgaag attcatgaaa gctcccacaa gacacctcat atattttttt atatactgaa
     2281 actacattat atttattacc ggcgtaaaac gaaataattt attatcgtta ccgatatttt
     2341 aaaaaaatca ttatttgcac agtgttcgag ttgttagtat cactccttcc tgaaaatccg
     2401 ctccatttac cataacgtcg cattgtacgc accgccaaaa cgcgttcggt gcgatcacgg
     2461 cagcagacag gtaaaaatgg caacaaacca cccgaaaaac tgccgcgatc gcacctgata
     2521 aattttaacc gcatgaatac ctatgcaacc agatgctaca ggccacatta gcccgcctta
     2581 atccactgaa cacgtcattt ttcatggttt caccatccca gcgaagggcc atccagtgtc
     2641 cgctcctgga tttccggctg acgctcccgc tccagagata actcatgttc gcgttcctgc
     2701 atcagccgtt catcccttat ctcctgttct cgctgtataa ctggctcaag cgttctgtcc
     2761 gctcgctcaa gtgctgcacc tgctgactca actgcatgac tcgcccgttc agcatcgcgt
     2821 tgtcccgttg cgtaagcgaa aacattttct gcaattccac gaaggcgttc tcccattcgt
     2881 tcagccgctg catatagtcc tgttgcagtt gctctaatgc gttcagcaaa tgtctttcca
     2941 gctccgtcat gctctgtcac tcctgcacca gtctcactgc gttcagtttg ccgttgtcct
     3001 tcgtccagtt cgtttcggct ttcatcccct tcggcaacac cagaaaacgt ccgttgctgt
     3061 cctcgtgata acgcacgccc catgtcttcg cgttcagctt ctccagactc tctttctgct
     3121 cgcggagaat attcatattc gcgtttatct tcatgccctg gtaccacagc agactcccgg
     3181 tcgtggcaaa catcagtact gagacgataa tcagccacag ccagcgtttc acgctcattt
     3241 tcagtacggt tttccagtgc gcgtccatcg tatcgacggt cgttttctga tacctctcca
     3301 gcagttcttt cagggctgtt gtatggtcgt tgatagcgtt cctgattaaa gattcgtttg
     3361 aggtcagttc cctgtttaca gattcttcga gcttcctgaa ctcgtcgttc agcattttct
     3421 ctgtagattc ggctctctct ttcagctttt tctcgaactc cgcgcccgtc tgtaaaagat
     3481 tgctcataaa acgctccttt cagtctgata ttcctcccgc cgttcgggtc tgcaatgctg
     3541 atactgcttc gcgtcaccct gaccacttca agccccgcct ctgtgagcgc ctgaatcaca
     3601 tcctgacggc cttttatctc tccggcatgg taaagcgcgt ctatcccgcg tgtgacgccc
     3661 tcagcaagcg cctgtttcgt ttccggcagg ttatcaggaa gggtcagcgt ccggcggttc
     3721 tccggggcgt tggggtcatg cagaccgtaa tggtgattca ccagcgtctg ccaggcatca
     3781 attctcggcc tgtctgcccg gtcgtagtac ggctggaggc gttttccggt ctgtagctcc
     3841 atgttcggaa tgacaaaatt cagctcaagc cgtcccttgt cctggtgctc cacccacagg
     3901 atgctgtact gatttttctc gagaccgggc atcagtacac gctcaaagct cgccatcact
     3961 ttttcacgcc ctccaggcgg cagctccttc tccgcgaacg acagaacacc tgacgtgtat
     4021 ttcttcgcaa atggcgtggc atcgatgagt tcccggacct cttccggatt cccctgaagc
     4081 accgttgccc cttcccggtt acgctccctt cccagcaggt aatcaaccgg accactgcca
     4141 ccaccttttc ccctggcatg aaacttaact atcatcccgc gccccctgtt ccctgaccgc
     4201 cagacgcagc cggcgcagct catccccgat ggccatcagt gcggccacca cctgaacccg
     4261 gtcaccggaa gaccactgcc cgctgttcac cttcctcgct gtctggttaa ggttattccc
     4321 gatggcggcc agctgacgca gtaacggcgg tgccagtgtc ggcagcttcc cggaacgggc
     4381 aaccggctca cccaggcaga cccgccgcat ccataccgcc agttgtttac cctcacagcg
     4441 ttccagtaac cgggcatgtt catcatcagt aacccgtatc gtgagcatcc tctcgcgttt
     4501 catcggtatc attaccccca tgaacagaac ccccccttac acggaggcat cagtgaccaa
     4561 acaggaaaaa accgccctta acatggcccg cttcatcaga ggccagacat taacgctgct
     4621 ggagaagctc aacgaactgg acgcggatga acaggcagac atctgtgaat cgcttcacga
     4681 ccacgccgat gagctttacc gcagttgcct cgcacgcttc ggggatgacg gtgaaaaccg
     4741 ctgacacatg cagctcccgg agacggtcac agcttgtctg tgagcggatg ccgggagcag
     4801 acaagcccgc cagggcgcgt caggccgttg acctttgggg tgtcggggcg aagccctgac
     4861 ccagtcacgt agcgatagcg gagtgtatac tggcttaacc attcggcatc agtgcggatt
     4921 gtatgaaaag tgcgccatgt ccggtgtgaa atgccgcaca gatgcgtaag gagaaaatgc
     4981 cagttcaggc gctcttccgc ttcctcgctc actgactcgc tacgctcggt cgttcggctg
     5041 cggcgagcgg actctccttt ctcaaaaacg ctaaccctgt tatccacaga acccggggat
     5101 aaaccaggaa agaacatgtg cgcaaaaaac gaaaccccgg gaaaggccgc gccggaggcg
     5161 ctttttccat aggctccgcc cccctgacgg acttcacaaa acagacactt tttcggtgca
     5221 tctgtgggag ccttgcggct caaccatgaa atccgccagc ggtggcgaaa cccgacgtgg
     5281 cttaaagatc atcaccgttt ccggtgaatc gctccctcct gcgcccccac gttcccgcca
     5341 tatcgattac cggatacctt ttccgccttt ctcccttacg ggacacgtgg cgctttctca
     5401 tagctcacgt cttctggtat ctcggggcga cttaggcagt tcgctccggg ctgggctgta
     5461 tgcaggaacc ccccgttcag cccgactgct gcgccttctc cggtaactgt tctcttgggt
     5521 ccaacccgga aaagacacca caaagcgcca ctggcagcag ccattggtaa aagtcatgtg
     5581 cgagatattt agagagtact tgaagtggct gccggagtgc ggctacacta g
//
