LOCUS       NZ_LT985284             6549 bp    DNA     circular CON 16-JUN-2024
DEFINITION  Escherichia coli strain 13948 plasmid RCS76_pII, complete sequence.
ACCESSION   NZ_LT985284
VERSION     NZ_LT985284.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA104588797
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_900289845.1-RS_2024_06_15
            Annotation Date                   :: 06/15/2024 03:52:03
            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)                     :: 139
            CDSs (total)                      :: 139
            Genes (coding)                    :: 118
            CDSs (with protein)               :: 118
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 21
            CDSs (without protein)            :: 21
            Pseudo Genes (ambiguous residues) :: 0 of 21
            Pseudo Genes (frameshifted)       :: 9 of 21
            Pseudo Genes (incomplete)         :: 12 of 21
            Pseudo Genes (internal stop)      :: 0 of 21
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LT985284.1.
            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..6549
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="13948"
                     /db_xref="taxon:562"
                     /plasmid="RCS76_pII"
     gene            43..204
                     /locus_tag="GWA62_RS00755"
     CDS             43..204
                     /locus_tag="GWA62_RS00755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_332606998.1"
                     /translation="MCARTPVQPDRCALSGNYRLESNPVRHALTPLAAATGNRISRAMM
                     AQTVLQSS"
                     /name="replication initiation protein"
     gene            702..929
                     /locus_tag="GWA62_RS00010"
                     /old_locus_tag="RCS76_PIICDS588D"
     CDS             702..929
                     /locus_tag="GWA62_RS00010"
                     /old_locus_tag="RCS76_PIICDS588D"
                     /inference="COORDINATES: protein motif:HMM:NF015489.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin E1 immunity protein"
                     /protein_id="WP_229471606.1"
                     /translation="MLYAIVISTILCPYSKYAIEYIAFNFIKKDFFERRKNLNNAPVAK
                     LNLFMLYNLLCLVLAIPFGLLGLFISIKNN"
                     /name="colicin E1 immunity protein"
     gene            complement(926..2493)
                     /gene="cea"
                     /locus_tag="GWA62_RS00725"
                     /pseudo=""
     CDS             complement(926..2493)
                     /gene="cea"
                     /locus_tag="GWA62_RS00725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000447006.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="pore-forming bacteriocin colicin E1"
                     /name="cea"
     gene            2753..3190
                     /locus_tag="GWA62_RS00025"
                     /old_locus_tag="RCS76_PII0003"
     CDS             2753..3190
                     /locus_tag="GWA62_RS00025"
                     /old_locus_tag="RCS76_PII0003"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405929.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001405929.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTGRDGRR
                     EFETSELIRAYGELKQNETPERHSEGHAENPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDMDRRRQEAEREQLQNEIAQLRQALELEKKRGFWSRLFGR"
                     /name="hypothetical protein"
     gene            3271..3690
                     /locus_tag="GWA62_RS00030"
                     /old_locus_tag="RCS76_PII0004"
     CDS             3271..3690
                     /locus_tag="GWA62_RS00030"
                     /old_locus_tag="RCS76_PII0004"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WP_001254967.1"
                     /translation="MRRTGNKLCLIAMITATVALTACTPKGSVEQHTRHYVYASDDGFD
                     PNFSTQKADTTRMMVPFFRQFWDMGAKDKATGKSRSDVQQRIQQFHSQEFLNSLRGTTQ
                     FAGTDYRSKDLTPKKSRLLADTISAVYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     gene            complement(4008..4241)
                     /locus_tag="GWA62_RS00035"
     CDS             complement(4008..4241)
                     /locus_tag="GWA62_RS00035"
                     /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_000137445.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4248..4766)
                     /locus_tag="GWA62_RS00040"
                     /old_locus_tag="RCS76_PIICDS4248R"
     CDS             complement(4248..4766)
                     /locus_tag="GWA62_RS00040"
                     /old_locus_tag="RCS76_PIICDS4248R"
                     /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_000067500.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNNEFRRLGESVSEAVTSNE
                     TKIRDAIALFTASTEESLEKHREGVKEAMMQHRRDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQANLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            complement(<4804..5502)
                     /locus_tag="GWA62_RS00760"
                     /pseudo=""
     CDS             complement(<4804..5502)
                     /locus_tag="GWA62_RS00760"
                     /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(5444..5767)
                     /locus_tag="GWA62_RS00045"
                     /old_locus_tag="RCS76_PII0007"
     CDS             complement(5444..5767)
                     /locus_tag="GWA62_RS00045"
                     /old_locus_tag="RCS76_PII0007"
                     /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            5831..6022
                     /locus_tag="GWA62_RS00050"
                     /old_locus_tag="RCS76_PIICDS5798D"
     CDS             5831..6022
                     /locus_tag="GWA62_RS00050"
                     /old_locus_tag="RCS76_PIICDS5798D"
                     /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            complement(6108..6287)
                     /locus_tag="GWA62_RS00055"
     CDS             complement(6108..6287)
                     /locus_tag="GWA62_RS00055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001508823.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_010889870.1"
                     /translation="MSEEAEKRLDVHFLLTHLCGISHPAWRTFHTIRTDAAWLSQYTLR
                     YRYVTGSGLRPDTR"
                     /name="hypothetical protein"
     Typing          complement(6108..6195)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.86e-39"
     Typing          complement(9..115)
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.248"
                     /coverage="100.0"
                     /evalue="2.51e-44"
     Typing          complement(3905..5454)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.473"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc
       61 gttcagcccg accgctgcgc cttatccggt aactatcgtc ttgagtccaa cccggtaagg
      121 cacgccttaa cgccactggc agcagccact ggtaaccgga ttagcagagc gatgatggca
      181 caaacggtgc tacagagttc ttgaagtagt ggcccgacta cggctacact agaaggacag
      241 tatttggtat ctgcgctctg ctgaagccag ttaccttcgg aaaaagagtt ggtagctctt
      301 gatccggcaa acaaaccacc gttggtagcg gtggtttttt tgtttgcaag cagcagatta
      361 cgcgcagaaa aaaaggatct caagaagatc ctttgatctt ttctactgaa ccgcgatccc
      421 cgtcagttta gaagaggagg atggtgcgat ggtccctccc tgaacatcac gtatatagtt
      481 agcctgacat ccaacaagga ggtttatcgc gaatattccc acaaaaaatc ttttcctcat
      541 aactcgatcc ttataaaatg aaaagaatat atggcgaggt ttaatttatg agcttaagat
      601 actacataaa aaatatttta tttggcctgt actgcacact tatatatata taccttataa
      661 caaaaaacag cgaagggtat tatttccttg tgtcagataa gatgctatat gcaatagtga
      721 taagcactat tctatgtcca tattcaaaat atgctattga atacatagct tttaacttca
      781 taaagaaaga ttttttcgaa agaagaaaaa acctaaataa cgcccccgta gcaaaattaa
      841 acctatttat gctatataat ctactttgtt tggtcctagc aatcccattt ggattgctag
      901 gactttttat atcaataaag aataattaaa tccctaacac ctcatttata gtattaagtt
      961 tattcttatc aatataggag catagaattc ctgtaacaat agcaataccc caaataccta
     1021 atgtagttcc agcaagcaag ctaaaaagta aagcaacaac ataactcacc cctgcatctg
     1081 cagctttctt ctctaatgta agaaatagtg gcttccagtc acctgtatcc ttaattttta
     1141 ggatatcaga taccacatca tatccaaaag aaacatgccc cgtaatcttc aagtacttgg
     1201 caaactgatc taaatgttta gcccagtcat catacttcac cgatgccaac gcattaaaaa
     1261 tagcatcacg atcggctttg ctgaatttct tatttaaaac atccttgtat ttttcaaaag
     1321 cagcgagagc ttcattcaca ttgccgattt tcttaccttt agacttatca gcaagttcct
     1381 gtgccatttt cgaatatttt tcaccatatt tttcagtcag cgtttgataa aagctaactg
     1441 ttgcatcaac agcatcctta atctgtgaat taaggagatt attctgtgct tttttcaaat
     1501 tttcttcagc ttcatgaaca cgagcgatac cggcattacg attattactg acctgagaaa
     1561 tagccttctg gatctgagtt atatcagcat ttatccggtt aatacgtgtt tctgatgctg
     1621 ttacctgttt ttgtttttct tctctaatct taccggcccc aacccgtcgt ctggttgctt
     1681 caaaaaaagg acggttctga agcggatcat tggctcttgg tgatagtttt ttgaccagct
     1741 catccagttc tttatattta gcggatgcct gagccagttc atttcgtttt ccagcgagcg
     1801 ttttcatttc tgcatcacgg gcatggatac tggagcttaa acgagaattg agagtcttaa
     1861 tctctccatc cattttcacc acttcagatt gtgcagcaga aagttttttt gggcgatctc
     1921 aacagcttta gcttcttcac tcaatgcagc cagtcgtttc tcttcagctt cagccagttt
     1981 caactggcgt tctgtttcag ccttctcccg ttcaatctct ttacgtcgtt gttctgcttc
     2041 ctgaaaagcc ttttctgctg cttccgcttc tttacgggct ttttcttctg ctttcgcaag
     2101 gcgcaaacgc tctgcttccg cctgcatagc tgcattatta gcatgagcaa gctctgttgc
     2161 tgaaggcgta cgtgaggcat tgtgacgaag agcctcattc acgatatcct tcaggcgctg
     2221 agtcagcgca tccctgtttg cctttgcttt cgcctgtgct tccgctgcag cttttgcccg
     2281 ggcagcctgc tctgcctgtg ttttctttaa ttgagcagta gaccatttag cagttgcatg
     2341 aatagctgca gaactttcac ttttactgcc tccttttcca cctccgccgc cagagccact
     2401 cccgtcagga gtaccattca aaagagtaat aattacctgt cccttatcat cataaggaac
     2461 accatcttta tagtacgcta ccgcggtttc cattataaaa tcctctttga cttttaaaac
     2521 aataagttaa aaataaatac tgtacatata accactggtt ttatatacag cataaaagct
     2581 acgccgctgc attttccctg tcaagactgt ggacttccat ttttgtgaaa acgatcaaaa
     2641 aaacagtctt tcacaccacg cgctattctc gcccgatgcc acaaaaacca gcacaaacat
     2701 taccgttctc agacctcatt atgttttact gaaactatga gatgagacat ctatgggaca
     2761 ctgtcacttt atggcatggc acacactccg ggacgcacta aaaatgacag gcagatcgcg
     2821 ttcacagttt taccgtgata tgcgcgcagg ccttgtcagt taccgtaccg gcagggacgg
     2881 acgacgggag tttgaaacca gtgaactgat ccgggcatac ggcgaattaa agcagaatga
     2941 gacaccagaa aggcacagtg agggacatgc agaaaatcca catgatcagc agacagaacg
     3001 cattctccgg gagctgaatg agctgaaaca atgcctgacg ctgatgcttg aggataaaca
     3061 ggcacaggat atggatcgca gacgccagga agcagaacgg gaacagctac aaaatgagat
     3121 agcccagctc aggcaggcac tggaactgga aaagaaacgg ggattctggt ccaggttgtt
     3181 cggtcgctga acgctgtcag agactgatga taaaatagtc ttcggataat aactcaccga
     3241 gaataaatac tttaaggtag ggagacactc atgagacgta ccggaaacaa actttgtctt
     3301 atcgccatga taacagcaac agtagctctc acagcctgta ccccaaaggg cagcgtggaa
     3361 caacataccc ggcattacgt atatgcttct gatgacggtt ttgatcccaa cttttccacc
     3421 caaaaagccg acacaacacg aatgatggtg cctttttttc ggcagttctg ggatatggga
     3481 gctaaagata aagcgacagg aaaatcacgg agtgatgtgc aacaacgcat tcagcagttt
     3541 cacagccagg aatttttaaa ctcactccgg ggcacaactc aatttgcggg tactgattac
     3601 cgcagcaaag accttacccc gaaaaaatcc aggctgctgg ctgacacgat ttctgcggtt
     3661 tatctcgatg gctacgaggg cagacagtaa gtggatttac cataatccct taattgtacg
     3721 caccgctaaa acgcgttcag cgcgatcacg gcagcagaca ggtaaaaatg gcaacaaacc
     3781 acccgaaaaa ctgccgcgat cgcgcctgat aaattttaac cgtatgaata cctatgcaac
     3841 cagagggtac aggccacatt acccccactt aatccactga agctgccatt tttcatggtt
     3901 tcaccatccc agcgaagggc catccagcgt gcgttcctgt atttccggct gacgctcccg
     3961 ttccagggat aacacatgtt cgcgctcctg tatcagccgt tcctctctta tctccagttc
     4021 tcgctgtata actggctcaa gcgttctgtc tgctcgctca agtgctgcac ctgctgactc
     4081 aactgcatga cccgctcgtt cagcatcgcg ttgtcccgtt gcgtaagcga aaacatcttc
     4141 tgcaattcca cgaaggcgct ctcccattcg ctcagccgct gcatatagtc ctgttgcagc
     4201 tgctctaagg cgttcagcaa atgtgtttcc agctctgtca ctctgtgtca ctccttcaga
     4261 tgtacccact ctttcccctg aaagggaatc acctccgctg atttcccgta cggaaggaca
     4321 aggaatttcc tgttcccgtc ctgcacaaac tccacgcccc atgtcttcgc gttcagtttc
     4381 tgcaatgtct cttcctgctt cctgatttct tccaggttcg cctgtatcct ccctccaaga
     4441 taccagagcg tcccgccact cgcggtaaac aggagaaaga ctatccccag taacatcatg
     4501 cccgtattcc ctgccagctt taacacgtcc ctcctgtgct gcatcatcgc ctctttcacc
     4561 ccttcccggt gtttttccag cgattcctct gtcgaggctg tgaacagggc tatagcgtct
     4621 ctgattttcg tctcgtttga tgtcacagcc tcgcttacag attcgccgag cctcctgaac
     4681 tcgttgttca gcattttctc tgtagattcg gctctctctt tcagcttttt ctcgaactcc
     4741 gcgcccgtct gcaaaagatt gctcataaaa tgctcctttc agcctgatat tcttcccgcc
     4801 gttcggatct gcaatgctga tactgcttcg cgtcaccctg accacttcca gccccgcctc
     4861 agtgagcgcc tgaatcacat cctgacggcc ttttatctct ccggcatggt aaagtgcatc
     4921 tatacctcgc gtgacgccct cagcaagcgc ctgtttcgtt tcaggcaggt tatcagggag
     4981 tgtcagcgtc ctgcggttct ccggggcgtt cgggtcatgc agcccgtaat ggtgattcac
     5041 cagcgtctgc caggcatcaa ttctaggcct gtctgcgcgg tcgtagtacg gctggaggcg
     5101 ttttccggtc tgtagctcca tgttcggaat gacaaaattc agctcaagcc gtcccttgtc
     5161 ctggtgctcc acccacagga tgctgtactg atttttttcg agaccgggca tcagtacacg
     5221 ctcaaagctc gccatcactt tttcacgtcc tcccggcggc agctccttct ccgcgaacga
     5281 cagaacaccg gacgtgtatt tcttcgcaaa tggcgtggca tcgatgagtt cccggacttc
     5341 ttccggatta ccctgaagca ccgttgcgcc ttcgcggtta cgctccctcc ccagcaggta
     5401 atcaaccgga ccactgccac caccttttcc cctggcatga aatttaacta tcatcccgcg
     5461 ccccctgttc cctgacagcc agacgcagcc ggcgcagctc atccccgatg gccatcagtg
     5521 cggccaccac ctgaacccgg tcaccggaag accactgccc gctgttcacc ttacgggctg
     5581 tctgattcag gttatttccg atggcggcca gctgacgcag taacggcggt gccagtgtcg
     5641 gcagttttcc ggaacgggca accggctccc ccaggcagac ccgccgcatc cataccgcca
     5701 gttgtttacc ctcacagcgt tcaagtaacc gggcatgttc atcatcagta acccgtattg
     5761 tgagcatcct ctcgcgtttc atcggtatca ttaccccatg aacagaaatc ccccttacac
     5821 ggaggcatca gtgactaaac aggaaaaaac cgcccttaac atggcccgct ttatcagaag
     5881 ccagacatta acgctgctgg agaagctcaa cgaactggac gcagatgaac aggccgatat
     5941 ttgtgaatcg cttcacgacc acgccgatga gctttaccgc agctgcctcg cacgtttcgg
     6001 ggatgacggt gaaaacctct gacacatgca gctcccggag acggtcacag cttgtctgtg
     6061 agcggatgcc gggagctgac aagcccgtca gggcgcgtca gcaggtttta gcgggtgtcg
     6121 gggcgcagcc ctgacccagt cacgtagcga tagcggagtg tatactggct taaccatgcg
     6181 gcatcagtgc ggattgtatg aaaagtacgc catgccgggt gtgaaatgcc gcacagatgc
     6241 gtaaggagaa aatgcacgtc caggcgcttt tccgcttcct cgctcactga ctcgctacgc
     6301 tcggtcgttc gactgcggcg agcggtactg actcacacaa aaacggtaac acagttatcc
     6361 acagaatcag gggataaggc cggaaagaac atgtgagcaa aagaccagga acaggaagaa
     6421 ggccacgtag caggcgtttt tccataggct ccgcccccct gacgagcatc aacaaaatcg
     6481 acgctcaagt cagaggtgga ccgaaacccg acgaggacta ataaagacta ccgaggtccc
     6541 gttttcccc
//
