LOCUS       NZ_OY754381             5873 bp    DNA     circular CON 01-NOV-2023
DEFINITION  Escherichia coli isolate F1140 plasmid pF1140-4, complete sequence.
ACCESSION   NZ_OY754381
VERSION     NZ_OY754381.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA113543029
            Assembly: GCF_963575395.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Leclercq,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-OCT-2023) INRAE, ISP, Centre INRAE Val de Loire, Site
            de Tours, Bat 213, 37380 Nouzilly, France
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/01/2023 10:36:23
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,258
            CDSs (total)                      :: 5,130
            Genes (coding)                    :: 4,970
            CDSs (with protein)               :: 4,970
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 160
            CDSs (without protein)            :: 160
            Pseudo Genes (ambiguous residues) :: 0 of 160
            Pseudo Genes (frameshifted)       :: 63 of 160
            Pseudo Genes (incomplete)         :: 116 of 160
            Pseudo Genes (internal stop)      :: 37 of 160
            Pseudo Genes (multiple problems)  :: 51 of 160
            Pseudo Genes (short protein)      :: 3 of 160
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OY754381.1.
            Complete genomic sequence of E. coli strain F1140.
            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..5873
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /isolate="F1140"
                     /db_xref="taxon:562"
                     /plasmid="pF1140-4"
     gene            join(5506..5873,1..685)
                     /locus_tag="R9A03_RS26260"
                     /old_locus_tag="FGAF1140_50310"
     CDS             join(5506..5873,1..685)
                     /locus_tag="R9A03_RS26260"
                     /old_locus_tag="FGAF1140_50310"
                     /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_021517772.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGNGGYSHPEGISTTWHSESKLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIDNSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGVPVDDASMFFNSFQPRKFE
                     NNPLYEKEDD"
                     /name="hypothetical protein"
     gene            687..1553
                     /locus_tag="R9A03_RS26265"
                     /old_locus_tag="FGAF1140_50320"
     CDS             687..1553
                     /locus_tag="R9A03_RS26265"
                     /old_locus_tag="FGAF1140_50320"
                     /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(2758..2949)
                     /locus_tag="R9A03_RS26270"
                     /old_locus_tag="FGAF1140_50330"
     CDS             complement(2758..2949)
                     /locus_tag="R9A03_RS26270"
                     /old_locus_tag="FGAF1140_50330"
                     /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_021539356.1"
                     /translation="MTKQEKTALNMVRFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3015..3338
                     /locus_tag="R9A03_RS26275"
                     /old_locus_tag="FGAF1140_50340"
     CDS             3015..3338
                     /locus_tag="R9A03_RS26275"
                     /old_locus_tag="FGAF1140_50340"
                     /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_024188420.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAAWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALIAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3547..>3978
                     /locus_tag="R9A03_RS26280"
                     /pseudo=""
     CDS             3547..>3978
                     /locus_tag="R9A03_RS26280"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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            4016..4546
                     /locus_tag="R9A03_RS26285"
                     /old_locus_tag="FGAF1140_50350"
     CDS             4016..4546
                     /locus_tag="R9A03_RS26285"
                     /old_locus_tag="FGAF1140_50350"
                     /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            4553..4786
                     /locus_tag="R9A03_RS26290"
                     /old_locus_tag="FGAF1140_50360"
     CDS             4553..4786
                     /locus_tag="R9A03_RS26290"
                     /old_locus_tag="FGAF1140_50360"
                     /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_021520366.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2583..2664
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.795"
                     /coverage="100.0"
                     /evalue="6.23e-34"
     Typing          1939..2126
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          3329..4890
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.232"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agaagagtta gtggacatac aaaaatatat ttgttcgctg catatgccag agtgctatcc
       61 aataaaagag gatgttattt atactgaaag cgtaccattt caggataaag atgggctaaa
      121 aatatataag gctggtgtta atgtttttta ctcttctgct catagaacaa gaaatcatga
      181 tagaagaata ccggggggaa tacttatttc tgtaaatgcc ccggggcatt ttatgaggct
      241 ggcgatagaa aaaggtttct ataaagatca agaacaagcg ttagcggata ttcgtaacat
      301 gactattcag tctgttggta acggtgggta ttcacatccg gaagggattt ctacaacatg
      361 gcattcagaa tctaaattgg atcgttttgg atgcccagtg cacaccggta atagttctta
      421 ttacagcggt ttttatcata ctgatgtatt aattccagga gaattaacta aggatgaaag
      481 attgctccat gaaatagata atagtgatcc aatgatcttc aactggaatg tattgtttta
      541 tgtttcatta gaagagtttc ctatagatga tccttattat ggagagttta ttggtgttcc
      601 tgtagatgat gcatctatgt tttttaactc ctttcaacca aggaaatttg aaaacaaccc
      661 cctttatgag aaagaggatg attaatatga ttaaaggaat gctttttgct tttttagcag
      721 cgttctcatg gggggcagct atcgtaatga gcaaaaaagg agttgaagaa ctagatgccg
      781 gaggggtgtt tttctggcag atttgtagtg cagtaatact atcttggata gttcttttta
      841 taaaaagaaa aaaactccca ttaaactcaa aagcgatact tgcttatgcg acaggcgttt
      901 ttgaaccatt cttagcgtat acttttacac tctacggact ttattttatt tcagcaggaa
      961 gcgcatcaat tattttttca cttgaatcag tgtttatatt ggtgttgtct gttcttattt
     1021 gctcagttaa aattaattcc ccgcaatatt ttatattgtt ccttataggt gcaattgttg
     1081 gcagtatttt ggtagccttg ccagacatca gtaatggatc gaataatatt gttggatatt
     1141 gtcttgttgt tgccggtgtg ttatcggcag cattttatgt tgttatatcg tctcgcctta
     1201 ttaaatcgtt tgagcctatc acattattga gcggacagtt gacattctcc cttatactgt
     1261 catcgctctt tatttttata tctaaatcct caatttatct tccgttggaa tccgtgatta
     1321 ttgttttttc atctggaata ttacaatatt ttttagcttt ttgtttttac ttgaactcct
     1381 tgcgttggct cccagttcat ttggcaggga taatgttgta ctttattccg ctagttgcat
     1441 tatttttgtc atggttgttt ttggatgaac aattcacatt cttacagggg gtaggattta
     1501 ttgtaactgt gctaagtgta tattttctta acagaaaata ctcagaggag taacattctg
     1561 ttcaggattg ccccccccgg cctccatcga taccgtgcca aatgcacgta aaaaacggga
     1621 gcgtttctgg tgtcggaatg taaccaaggg gggcagaggc gcgctaaaac gctctcaggg
     1681 gagtcaaata gagacgtttg taacaaaaag atcaaaggat cctcttgaga tccttttttt
     1741 ctgcgcgtaa tctgctgcct gtaaacgaaa aaaccgcctt gcagggcggt ttgatcgaag
     1801 gttaagtcag cttgcagact gcttaaccag gtaactgtct tatgcgagac gagtcaccaa
     1861 aattgttctt ctagtgtagc cgcactccgg cagccacttc aagtactctc taaatatctc
     1921 gcacatgact tttaccaatg gctgctgcca gtggcgcttt gtggtgtctt ttccgggttg
     1981 gacccaagag aacagttacc ggagaaggcg cagcagtcgg gctgaacggg gggttcctgc
     2041 atacagccca gcccggagcg aactgcctaa gtcgccccga gataccagaa gacgtgagct
     2101 atgagaaagc gccacgtgtc ccgtaaggga gaaaggcgga aaaggtatcc ggtaatcgat
     2161 atggcgggaa cgtgggggcg caggagggag cgattcaccg gaaacggtga tgatctttaa
     2221 gccacgtcgg gtttcgccac cgctggcgga tttcatggtt gagccgcaag gctcccacag
     2281 atgcaccgaa aaagtgtctg ttttgtgaag tccgtcaggg gggcggagcc tatggaaaaa
     2341 gcgcctccgg cgcggccttt tccggggttt cgttttttgc gcacatgttc tttcctggtt
     2401 tatccccggg ttctgtggat aacagggtta gcgtttttga gaaaggagag tccgctcgcc
     2461 gcagccgaac gaccgagcgt agcgagtcag tgagcgagga agcggaagag cgcctgaact
     2521 ggcattttct ccttacgcat ctgtgcggca tttcacaccc gacatggcgc acttttcata
     2581 caatccgcac tgatgccgaa tgattaagcc agtatacact ccgctatcgc tacgtgactg
     2641 ggtcagggct tcgccccgac accccaaagg tcaacggcct gacgcgccct ggcgggcttg
     2701 tctgctcccg gcatccgctc acagacaagc tgtgaccgtc tccgggagct gcatgtgtca
     2761 gcggttttca ccgtcatccc cgaagcgtgc gaggcaactg cggtaaagct catcggcgtg
     2821 gtcgtgaagc gattcacaga tgtctgcctg ttcatccgcg tccagttcgt tgagcttctc
     2881 cagcagcgtt aatgtctggc ttctgataaa gcggaccatg ttaagggcgg ttttttcctg
     2941 tttagtcact ggatgcctcc gtgtaagggg gatttctgtt catgggggta atgataccga
     3001 tgaaacgcga gaggatgctc acgatacggg tgactgatga tgagcatgcc cgtttactgg
     3061 aacgctgtga gggtaaacaa ctggcggcat ggatgcggcg ggtctgcctg ggtgagcctg
     3121 ttgcccgttc cgggaagctg ccgacactgg caccgccgtt actgcgtcag ctggccgcta
     3181 tcgggaataa ccttaaccag acagcgagga aggtgaacag cgggcagtgg tcttccggtg
     3241 accgggttca ggtggtggcc gcactgatag ccatcgggga tgagctgcgc cggctgcgtc
     3301 tggcggtcag ggaacagggg gcgcgggatg atagttaagt ttcatgccag gggaaaaggt
     3361 ggtggcagtg gtccggttga ttacctgctg ggaagggagc gtaaccggga aggggcaacg
     3421 gtgcttcagg ggaatccgga agaggtccgg gaactcatcg atgccacgcc atttgcgaag
     3481 aaatacacgt caggtgttct gtcgttcgcg gagaaggagc tgccgcctgg agggcgtgaa
     3541 aaagtgatgg cgagctttga gcgtgtactg atgcccggtc tcgagaaaaa tcagtacagc
     3601 atcctgtggg tggagcacca ggacaaggga cggcttgagc tgaattttgt cattccgaac
     3661 atggagctac agaccggaaa acgcctccag ccgtactacg accgggcaga caggccgaga
     3721 attgatgcct ggcagacgct ggtgaatcac cattacggtc tgcatgaccc caacgccccg
     3781 gagaaccgcc ggacgctgac ccttcctgat aacctgccgg aaacgaaaca ggcgcttgct
     3841 gagggcgtca cacgcgggat agacgcgctt taccatgccg gagagataaa aggccgtcag
     3901 gatgtgattc aggcgctcac agaggcgggg cttgaagtgg tcagggtgac gcgaagcagt
     3961 atcagcattg cagacccgaa cggcgggagg aatatcagac tgaaaggagc gttttatgag
     4021 caatctttta cagacgggcg cggagttcga gaaaaagctg aaagagagag ccgaatctac
     4081 agagaaaatg ctgaacgacg agttcaggaa gctcgaagaa tctgtaaaca gggaactgac
     4141 ctcaaacgaa tctttaatca ggaacgctat caacgaccat acaacagccc tgaaagaact
     4201 gctggagagg tatcagaaaa cgaccgtcga tacgatggac gcgcactgga aaaccgtact
     4261 gaaaatgagc gtgaaacgct ggctgtggct gattatcgtc tcagtactga tgtttgccac
     4321 gaccgggagt ctgctgtggt accagggcat gaagataaac gcgaatatga atattctccg
     4381 cgagcagaaa gagagtctgg agaagctgaa cgcgaagaca tggggcgtgc gttatcacga
     4441 ggacagcaac ggacgttttc tggtgttgcc gaaggggatg aaagccgaaa cgaactggac
     4501 gaaggacaac ggcaaactga acgcagtgag actggtgcag gagtgacaga gcatgacgga
     4561 gctggaaaga catttgctga acgcattaga gcaactgcaa caggactata tgcagcggct
     4621 gaacgaatgg gagaacgcct tcgtggaatt gcagaaaatg ttttcgctta cgcaacggga
     4681 caacgcgatg ctgaacgggc gagtcatgca gttgagtcag caggtgcagc acttgagcga
     4741 gcggacagaa cgcttgagcc agttatacag cgagaactgg agataaggga tgagcggctg
     4801 atacaggagc gcgaatatgc gttatccctg gagcgggagc gccagccgga aattcaggaa
     4861 cggacactgg atggcccttc gctgggatgg taaccagaga caggctaaaa tgttggcagc
     4921 gcgtttccgg tgcatttttt gggataatgg ttggttcggg ggcaccggga acgcgcttca
     4981 gtcagagctt gctgaaaaca caggaacgcg ttaaaacgca tgcgggcgcg attctggtgt
     5041 gtctttgttg ctgtgttttg ccgttattgc cagatcgcgc tcattcccat gaatttctgt
     5101 ttttccgctc cggttccgtc ttctgccttt ccgaaagtat gaaaaaaatc cgtttcagca
     5161 gtctctggct ggcaattcct gcgtgattca catggctgca tagctatgca tgtggttaaa
     5221 atttatcggg tgcgatcgcg gcagtttttc gggtggtttg ttgccatttt tacctgtctg
     5281 ctgccgtgat cgcaccgaac gcgttttggc ggtgcgtaca atgcgacgtt atggtaaatg
     5341 gagcggattt tcaggaagga gtgatactaa caactcgaac actgtgcaaa taatgatttt
     5401 ttaaaatatc ggtaacgata ataaattatt tcgttttacg tcggtaataa atataatgta
     5461 gtttcagtat ataaaaaata tatgaggtgt cttgtgggag ctttcatgaa tcttcaacaa
     5521 cgtataaata aactaccaca attatcatcc agtttttcat ttggaaaaga tattgataat
     5581 attcattcat ttatctttaa cgaaacttct aaagataaaa ttgaagattt actaagaaaa
     5641 tgggtgtcag gcaatcagcc ctgtgtattt ggtaaattgg caagcaagaa aattaaaggg
     5701 cttgatttcc atttatctat tgtaaatagc ccccaactat ataatgatga tggtcatttg
     5761 tttgattttt tgcgtaatga aagagttcgt tttaaagaac gcgcaagaag aggagaggtc
     5821 agtgcgcatc tcatttattt tattcatcca caacttgcat ttgctcgtcc atc
//
