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pKOM-3

Partial genome of BK virus, lineage III

Catalog number RDB07266
Resource name pKOM-3
Clone info. Partial genome of BK virus, lineage III. BKV genomic DNA derived from the urine of a Japanese bone marrow transplant patient. This clone contains a genomic fragment corresponding to the 3952nt - 5132nt and 1nt -1618nt of AB211386.1.
Vector backbone pUC19 (Plasmid)
Size of vector backbone 2,690 bp
Selectable markers Amp^r
Gene/insert name Hum_Polyoma BKV genomic DNA
Reference of insert sequence AB211386 (DDBJ accession number)
Depositor|Developer Yogo, Yoshiaki |
Other clones in our bank
External Database
Hum_Polyoma BKV
            Reference sequence
              
             

            Distribution information

            Please check terms and conditions set forth by the depositor, which are specified in the RIKEN BRC Catalog and/or Web Catalog.
            Terms and conditions for distribution In publishing the research results obtained by use of the BIOLOGICAL RESOURCE, a citation of literature(s) designated by the DEPOSITOR is requested. (J. Mol. Evol., 63, 341-352 (2006))
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            提供条件 利用者は、研究成果の公表にあたって寄託者の指定する文献を引用する (J. Mol. Evol., 63, 341-352 (2006))。
            提供依頼 手続きの詳細は、「提供申込みについて[link]」をご覧ください。営利目的利用についてはお問い合わせください。
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            提供同意書 (MTA、非営利機関による非営利学術研究用)[Word]

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            RDB07266 pKOM-3 DNA solution

            Please review the QC test results indicated by check icon below as well as clone information before placing your order.

            How to cite this biological resource

            Materials & Methods section:

            The pKOM-3 was provided by the RIKEN BRC through the National BioResource Project of the MEXT, Japan (cat. RDB07266).

            Reference section:

            Nishimoto, Y., Takasaka, T., Hasegawa, M., Zheng, H.Y., Chen, Q., Sugimoto, C., Kitamura, T., Yogo, Y., Evolution of BK virus based on complete genome data. J. Mol. Evol., 63, 341-352 (2006). PMID 16897259.

            Further references such as user reports and related articles (go to bottom)

            References and tips

            Featured content

            QC test results

            RIKEN BRC has sequenced portions of this material for quality test.
            Please review the QC test results indicated by check icon as well as clone information before placing your order.

            Test sheet RDB07266_A8F5p1-2.pdf check

            Nucleotide sequence of a portion of this resource (if available).

            Primer: reverse-2 (Pr0100)
            Region: insert 5'
            Sequence file: RDB07266_A8F5a.seq check
            >07266_07266_A8F5_3_Reverse2_A09_03_ABI24.ab1
                1 ATAAAAGGAT TTCGCCAGCT TGCATGCCTG CAGGTCGACT CTAGAGGATC CCTAGTTAAG
               61 GCACTGTATA GTAAGTATTC CTTATTAACA CCCTTACAAA TTAAAAAACT AAAAGTACAC
              121 AGCTTTTGAC AGAAATTATT AATTGCAGAA ACTCTATGTC TATGTGGAGT TAAAAAGAAT
              181 ATAATATTAT GACCAGCACA CATGTGTCTA CTGATAAAAG TTACAGAATA TTTTTCCATA
              241 AGTTTTTTAT ACAGAATTTG AGCTTTTTCT TTAGTGGTAT ACACAGCAAA ACAGGCAAGT
              301 GTTCTATTAC TAAATACAGC TTGACTAAGA AACTGGTGTA GATCAGAGGG AAAGTCTTTA
              361 GGGTCTTCTA CCTTTCTTTT TTTTTTGGGT GGTGTTGAGT GTTGGGAATC TGCTGTTGCT
              421 TCTTCATCAC TGGCAAACAT ATCCTCATGG CAGAATAAAT CTTCATCCCA TTTTTCATTA
              481 AAGGAGCTCC ACCAGGACTC CCACTCTTCT GTTCCATAGG TTGGCACCTA TAAAAAAAAA
              541 ATAATTACTT AGGGTCTTTC TTTTAATTTA CTACTTTTCT AAATATAAAT TAGTTACCTT
              601 AAAGCTTTAG ATCTCTGAAG GGAGTTTCTC CAATTATTTG GACCCACCAT TGCAGGGTTT
              661 CTTCAGTGAG GTCTAAGCCA AACCACTGTG TGAAGCAATC AATGCAGTAG CAATCTATCC
              721 AAACCAATGG CTCTTTTCTT AAAAATTTTC TATTTAAATG CCTTAATCTT AGCTGACATA
              781 GCATGCAAGG GCAATGCACT GAAGGCTTTT TGGAACAAAT AGGCCATTCC TTGCAGTACA
              841 AAGTATCTGG GCAAAGAGGA AAATCAGCAC AAACCTCTGA GCTATTCCAG GTTCCAAAAT
              901 CAGGCTGATG AGCTACCTTT ACATCCTGCT CCATTTTTTT TATATAAAGT ATTCATTCTC
              961 TTCATTTTTA TCCTCGTCGC CCCCCTTTTG TCAGGGTGAA ATTCCCTTAC ACTTTTTTTT
             1021 AAATAGCTTT TTTCTCATTT AACGGCACGG TTTTCCTCAG GCAGCTCTTT CAAGACTTAA
            1081 AGGATCCATG AGCTTCCCAA TG
            //
            Primer: M13_-40 (Pr0410)
            Region: insert 3'
            Sequence file: RDB07266_A8F5b.seq check
            >07266_07266_A8F5_3_M13_-40_B09_06_ABI24.ab1
                1 CAGCAGTCAT CGAGCTCGGT ACCCGGGGAT CCCCCATTTC TGGGTTTAGA AAGCATTCTA
               61 CCTCTGTTAT AGCATCTACC CCAGTTTTAA CTTCTAGAAC TTCTACTCCT CCTTTTATTA
              121 GTAGTTTTGG CACTTGCACG GGTTCCTTTG GCTTTTTGGG AGCTGCCCCT GGACACTCTC
              181 CTTTTCTTTT GGTTGGGGCC ATCTTCATAT GCTTCAAGAG CAGGTGTTAC AGTCCCGTAC
              241 AGGCCTAGAA GCAAAGGCAA CATCCATTGA GGAGCAGTTC TTTGATTAGC ACCTCCTGGG
              301 GCAATAGTTT TTTCTATAAA CTCTCCTGAA TGTACACTTT CCTTATTTCT TAAATCCATT
              361 CTTTGGGTAA CTTCTTCTAT ACTGTCAGCA TTATCTATGC TGTAGGTATG GCCAAAATTT
              421 ACATGGGTAC CTTCCCTTTC AGCTACTTGC CTAACCATTG AAGGCCTAAT AGGGGACAAA
              481 TTAGAATAAT AATCCTGAAT ATAATTATAA AAGTTTATGG GGGCATTTAC AATTGTCCAG
              541 GTGGTTTCTT CCAAAAATCT AGCCAAAGAG TCCCTAAAAA ATCTCTCTGT TCTCCTTTGC
              601 AATTCTTGTG AAGTTATAGC AGGTATATCA TCTCTAATAA CATGCCACAA AGCCTGGGAA
              661 ATAGTAGCAA ACAAAGAAGG ACCCCAATGC CTAGGATCTA GATATTGAAT ATTATTAACA
              721 AAGGTATTTA CACCAGGAAA CAAAATATCA TAGTACTCAT CTGGGTTAAA CAATTCCAAA
              781 GCCATGCCTG ATTGCTGATA AAGGCCTACA GTGGAAACTT TGTGATCCCA ATCACTAAAA
              841 AAACCTATAC CCTACTTGAG CCAAAGAACT AATACCAGTA ACAGTTTGAA TTAAAGCAGC
              901 AAACCCAGCA ATAGCCCCCT GGAGCACCAG CAATTACAGC ATATGTTTTG AGGTGTTTAG
              961 GCCTATAGCA GCTATAGCCC TCTGAGGTAG TTGTTATGCC CTCTACAGTA GCACGGATGC
             1021 AATTTGAAAC TTCCTATGGG CAGCCAGCCA GTCGTCCCCA GCAGCAGTTT CAGGCCAACT
            1081 GGATAAATCC TTGTTGGG
            //
            Primer: Bkvirus_R1 (Pr0566)
            Region: insert mid
            Sequence file: RDB07266_A8F5c.seq check
            >07266_07266_A8F5_3_BKvirus_R1_C01_03_ABI08.ab1
                1 ATGGTTGCGG CCGGCAGCCT CAGGATACAC TGGGCAACTA GGTCCCCCAA AAGGTGCTAG
               61 AGCAGGCACC CATCAACCTG AAAATACAAA AAAAAAGCAT TACTTACCTA GGAGTCTTTT
              121 ACAGAGTCTT TTACAGCAGG TAAAGCAGTG GTACTTTTGT TTTTCCCGTC TACACTGTCT
              181 TCACCTCTAC AAAATTCCAG CAAAAGCTCT AAAATAAAAA TAAAAATCCT CTGAGCTCTT
              241 TTTTTAGTTC CAGTCCAGGT TTTACTAACT TTCACTGAAG CTTGTCGTGA CAGCTGGCGC
              301 AAAACCATGG CCTTTGTCCA GTATTAACTG GGGACAAGGC CAAGATTCTT AGGCTCGCAA
              361 AACATGTCTG TCTGGCTGCT TTCCACTCCT TTGGAAAGTT TCCACTTCCT CTTGTGTTTA
              421 TTTGAGAATG TTAGGGGCGG GGTTTCACTA TTAACTGCCA CTGGCTGGCT GCCCAGTCAT
              481 GCACTTGCTT CCTGAGGTCA TGGTTTGGCT GCATTCCATG GGAAAGCAGC TCCTCCCTGT
              541 GGCCTTTTTT TTTATAATAT ATAAGAGGCC GAGGCCGCCT CTGCCTCCAC CCTTTCTCTG
              601 AAGTAGTAAG GGTGTGGAGG CTTTTTCTGA GGCCTAGCAA AACTATTTGG GGAAATCCCT
              661 ATTGTTTTGC AATTTTCTGC AAAAATGGAT AAAGTCTTAA ACAGGGAAGA ATCCATGGAG
              721 CTCATGGACC TTTTAGGCCT TGAAAGAGCT GCCTGGGGAA ACCTTCCCTT AATGAGAAAA
              781 GCCTATTTAA AAAAAGTGTA AGGAATTTCA CCCTGACAAA GGGGGCGACG AGGATAAAAT
              841 GAAGAGAATG AATACTTTAT ATAAAAAAAT GGAGCAGGAT GTAAAGGTAG CTCATCAGCC
              901 TGATTTTGGA ACCTGGAAAT AGCTCAGAGG TTTGTGCTGA TTTTTCCTCT TTTGCCCAGG
              961 ATACTTTGTA ACTGCAAGGA AATGGCCTAT TTGTTCCCAA AAAGCCTTTC AGTGCATTGC
             1021 CCTTGCATGC TAATGTCAGC TAAGATTTAA GGGCATTTAA ATAGAAAATT TTTAAAGAAA
             1081 AAGGAGCCCA TTGGTTTGGA ATAGAATTGC CTACTTGCAT GGACTGCCTC ACAACAGTGA
            1141 TTGGACTTAG AAACCTTCAA CCTGTGAAAG AAAAA
            //

            Please visit Sequencing and PCR primers for primer information.

            References

            Original, user report and related articles

            original Nishimoto, Y., Evolution of BK virus based on complete genome data. J. Mol. Evol., 63, 341-352 (2006). PMID 16897259.

            2023.05.01

            GNP_filter3_RDBDEP_html_230501.pl