LOCUS       NZ_OY754857             4091 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli isolate Reference plasmid pGPT21-004_4, complete
            sequence.
ACCESSION   NZ_OY754857
VERSION     NZ_OY754857.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA114565969
            Assembly: GCF_963575795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hendriksen,R., Thornval REBEKKA,N., S?rensen HOLM,L. and
            Lacy-Roberts,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-NOV-2023) DTU National Food Institute, Global Capacity
            Building Group, Bygning 202 DK-2800 Kgs Lyngby, Denmark
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_963575795.1-RS_2024_04_03
            Annotation Date                   :: 04/03/2024 23:59:37
            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)                     :: 5,626
            CDSs (total)                      :: 5,498
            Genes (coding)                    :: 5,206
            CDSs (with protein)               :: 5,206
            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)              :: 292
            CDSs (without protein)            :: 292
            Pseudo Genes (ambiguous residues) :: 0 of 292
            Pseudo Genes (frameshifted)       :: 108 of 292
            Pseudo Genes (incomplete)         :: 168 of 292
            Pseudo Genes (internal stop)      :: 74 of 292
            Pseudo Genes (multiple problems)  :: 54 of 292
            Pseudo Genes (short protein)      :: 3 of 292
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OY754857.1.
            Reference for the DTU Genomic PT2021.
            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..4091
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /isolate="Reference"
                     /db_xref="taxon:562"
                     /plasmid="pGPT21-004_4"
     gene            join(3615..4091,1..1671)
                     /gene="mobQ"
                     /locus_tag="AABJ60_RS28115"
     CDS             join(3615..4091,1..1671)
                     /gene="mobQ"
                     /locus_tag="AABJ60_RS28115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_061089184.1"
                     /translation="MAIYHLSMKILSRSKGYSAVASAAYRAGEKILDERTGVIHDYTRK
                     NGVASAVILTPANAPAWCANRAELWNAVEKAERRKNSQLAREFELAIPRELAQDAARET
                     VLNFVRENFVSRGMIADVAFHNLGGSNPHAHIMLSMRAITPDGFGEKVREWNDWTHAET
                     WRGSWADHANRALANAGYQEEIDHRSYERQGVEKTPGIHLGKSACAMEKWGIETERGEQ
                     NRLINRLNLEIQVSRDELRNSELTEPARRMADLLNIELPDNATSYILHDIIEALPTDSN
                     AAWKLTSKAMSMMADMQATRRRWEDLNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWV
                     APEYGREQEKIQSLSQRMEKLRQHHWKVEKQDIPASQKAFETQWQQWGASGLADLREQL
                     RKREEELRRKEQEETERRRAEQLRRNDNAVMDSGVLKAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRSRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSMGGVVRLNGTLYPAFAVPTADNSQLVINALTDKGLRFA
                     GYGEAVNHDADSPARPAPELMQFHLKTWSEPLFAIVNTPEKQPDHLFRSLGFERTWDEW
                     QRDEYARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(1920..2621)
                     /locus_tag="AABJ60_RS28120"
     CDS             complement(1920..2621)
                     /locus_tag="AABJ60_RS28120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_011666799.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGSDAESTEL
                     QKTMTVTAEEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCVDELNQKSDLAVTLETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3154..3444)
                     /locus_tag="AABJ60_RS28125"
     CDS             complement(3154..3444)
                     /locus_tag="AABJ60_RS28125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001514113.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_021533561.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVREP
                     GETQLRAWLLHLLKTEVTRQADVSRIQPLIDELNALPKPVPKEVSENDQQA"
                     /name="hypothetical protein"
     Typing          complement(3449..3599)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.81"
                     /coverage="85.0"
                     /evalue="3.53e-55"
     Typing          complement(3616..3970)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1922..2621)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.301"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2..1668
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.101"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cacgccgaaa catggcgggg atcatgggca gaccatgcga acagggcgct ggcgaacgcc
       61 ggttatcagg aagagataga ccatcgttca tacgagcgac agggggttga gaaaacgcct
      121 ggcattcacc tcggaaagtc ggcctgtgcg atggaaaagt ggggcatcga aacagaacgc
      181 ggcgaacaga atcgcctgat taacaggctt aacctggaaa tacaggtttc ccgcgacgaa
      241 ctcaggaaca gtgagctgac agagcccgca cgccgtatgg ctgaccttct gaatattgag
      301 cttcctgaca acgcaacttc gtacatactg catgacatca tcgaagcgtt gccgacggac
      361 agtaacgcag catggaaact caccagtaaa gccatgtcga tgatggcaga tatgcaggcg
      421 acgcgcagac gctgggaaga tctgaacacc gaacgaaagg aagcgatgag ccatgctgcc
      481 agcctgaaaa aatcatcgcc gttttcgtcc ggtttttccc gtattcccct gatgcaatgg
      541 gttgcaccgg aatacggccg cgaacaggaa aaaatccagt cgttgagcca gcgcatggaa
      601 aaattgcggc agcatcactg gaaggttgag aaacaggaca ttcccgcgag tcaaaaagca
      661 tttgaaacac agtggcagca gtggggtgca tctggccttg cagatctccg agaacagttg
      721 cgtaaacgtg aagaggaatt gcgccggaag gagcaggagg aaacagaacg tcgtcgggcg
      781 gagcagctca ggagaaatga caatgccgtt atggattcag gggtactgaa agcagtcgtt
      841 acggggtatg gcgaggcccc catgccaggt aacggggaaa tgacctgtta ccttctgctt
      901 cacaaccgga acggagaata tacgctctgg gggaacgagc tggagaaata ccgctccaga
      961 atttttgaga gtgttgattt aatgcgtgac aggagtggtt atatctgtga ccgaagcgaa
     1021 atcggtcaac gtccaccact gcaacgtgtt tattcctctg cgacctttga gcaactgctg
     1081 acgcaggttt gccagacatg gccgcaacat acccgtaatc tccgccagcc gaaaacatgg
     1141 ccggagtctt tctgtcttgg agaagaccgc cagccagcca tgccatcact ggcggcaagg
     1201 aaggtggatt ttacgcaggg acgtctgcca ccgactctga tgccggtaat gagttctgtc
     1261 gaccgtgaaa cccgccagct tcagcttttg ctggtcatgg gtgtggatga ctctatgggc
     1321 ggtgttgtcc ggcttaatgg tacgctgtat cccgcgtttg ccgtccccac agccgacaac
     1381 agccagctgg taatcaatgc actgaccgac aaaggtttac gctttgcagg ctatggtgaa
     1441 gcggtaaacc acgatgctga cagtccggca cgtcctgcgc cggaacttat gcagtttcat
     1501 ctgaaaacct ggagcgaacc gctttttgct atcgtcaaca cgccagaaaa acagccggat
     1561 catctgttcc gctcgctggg ctttgagcgc acctgggatg aatggcaacg tgatgaatat
     1621 gcccgaacac acgccaccga gaggagacat gatcgcggtt ggtcacagtg aatgtgacca
     1681 atattttgtt ttgtttaaca tcgtgttatg ttcgtcgatg ttcatcgaca gggatgaatg
     1741 caagaagcac acacataaca caaatcaact ttatagtttt cccgcccccg aaaaattggg
     1801 ggttcttttt tcactgtgcc agagcgttta tgacgcaatt ttttacttca ccagtacctt
     1861 cgcatgccaa acacaaaaaa aacgcgtcag agagcgtttt agaggcctta aaatcgattc
     1921 tagatcgtca tcttgatctg tttgtcttcc ttgaagcgaa aatgcagggc tacaaccgtg
     1981 cgccccttct tgatcgtctc aagcgttaca gccaagtcgc ttttttgatt cagttcgtca
     2041 acgcaaggtc ttaataattg ctggttcaga gacttatatg tttgatattt atgctctata
     2101 tcaagcattg agcgaaaatc atcgagggcg ataatacgtt cccctgtgct gcggaattgc
     2161 tggagaagtt cgtatattct tatgctgtaa cttcttgata aattggagat gttcttaatt
     2221 acaactctag taaattgccc cttcaactgt gtcagataag gcatgaccgc atctgaaaaa
     2281 gtgatttggg ctttgccctc acctttagcg tactgtgccc gatactggat ccagcggaac
     2341 tcctcgcgct tctcatcgtc cttaaggatg atcgacctgt cccacaaacg atcaattgct
     2401 tcctgtagct gaacctcggc atttttccgc cccatatcag ggaatgagtc gaaatactct
     2461 tcggcggtaa cagtcatggt cttttgcaat tcagtggatt ctgcatcaga acccgacttc
     2521 aatcgaccaa tgcaaagtaa caagaatcgc tgttcctgaa gagtcaattt atagctggcc
     2581 tcaaccagtg cattggattt gtaggcaatc agatccgaca ttgtaaatcc ctcaacctaa
     2641 ggtaatgagt aaaatataaa cattccttta ggtaaaggca atatgattta attttaatat
     2701 cccttttcct gtgaatatta ccttaaatca tattgccttt accttaaatc atattgccta
     2761 tccaccttaa atcatattgc ctttacctta aattatatta cctatagtct tctaaactct
     2821 tgaatttcat aagaaaattc gaccctaaaa caagtattaa aaacaagatc ttaaaaacaa
     2881 gatctaaaaa cttaacggcg agcctgtgga aaacttgggg tgttcaaaac aaaaaatcat
     2941 ggaaaacaac aggttacaaa aaagcaggtt cgcaagcttt agcaaaaccc cgctcaaccc
     3001 tgtggaaatc cagtattcat gcgggttcag cgcatatcac ctgtcgaaaa accgtgcgta
     3061 tgtgctcaat ctggcgacgg attcacttcc gcttcctcgc ccactcgctc gctaacgctc
     3121 ggtcgctggg gctgcggcga gcggacggtg cattcacgcc tgttggtcgt tttctgacac
     3181 ttctttgggg actggttttg gtaacgcgtt cagttcgtca atcaacggct gtatcctgct
     3241 cacatcagcc tgccgtgtta cctctgtctt caggagatga agcaaccagg ctcgtagttg
     3301 tgtttcccca ggctccctga cctttgccag caatgccgct cccacaatga ccttctgcgc
     3361 tgtgtccagg ctcctgctct tcgccttcag acgctgcaat ctggcctcag catcggcaat
     3421 cttctgttcg agtgttctac tcattccgta actccgtgcg cggtgaaaaa tcgcatttta
     3481 gcgcgtcact ggtagtttaa aaactgaact ggcataatgc acagcaaatc acgaagtgcg
     3541 cacttataca aactctcctt cgtcgagttt gtgtgcgccc tgcggggcta aaagaaaacg
     3601 gcaacaacga cacgatggca atttatcatc tcagcatgaa gattctttcc agaagcaagg
     3661 gctacagcgc cgttgcttct gctgcctatc gtgccggaga aaaaatactg gatgagcgca
     3721 ccggagtgat tcacgactac acccgcaaaa acggtgtagc cagcgcagtg attctgacgc
     3781 cagcaaacgc cccagcatgg tgtgcgaacc gcgccgaact ctggaatgct gttgaaaaag
     3841 ccgagcggcg gaaaaactca caacttgcgc gggagttcga actcgccatc ccccgtgaac
     3901 tggcgcagga tgccgcacgg gaaacagttc tcaacttcgt aagggaaaac tttgtcagtc
     3961 gcggcatgat cgccgacgtg gcctttcaca atctgggcgg gtcaaaccca cacgcgcaca
     4021 tcatgctatc catgagggca atcacgcctg acggcttcgg ggagaaagtc cgtgagtgga
     4081 atgactggac t
//
