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pCY

Complete genome of JC virus, archetype

Catalog number RDB03031
Resource name pCY
Clone info. Complete genome of JC virus, archetype.
This clone contains whole genome of AB038249.1 (4,298nt to 1nt and 5,120nt to 4,299nt) in BamHI site of pUC19 by quality test. Known differences: A to C substitution (Gly, synonym) at 2446 nt of AB038249.1.
Vector backbone pUC19 (Plasmid)
Size of vector backbone 2,690 bp
Selectable markers Amp^r
Gene/insert name Hum_Polyoma JCV genome Genomic DNA
Reference of nucleotide sequence AB038249 (DDBJ accession number)
Depositor|Developer Yogo, Yoshiaki |

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 set forth by the DEPOSITOR In publishing the research results obtained by use of the BIOLOGICAL RESOURCE, a citation of literature(s) designated by the DEPOSITOR is requested.
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RDB03031 pCY DNA solution

Ordering Information [in Japanese] [in English]
Please review the QC test results indicated by check icon below as well as clone information before placing your order.

References and tips

Electronic file

Remarks, protocol and/or map (gif) RDB03031.gif

Original reference

original Yogo, Y., Isolation of a possible archetypal JC virus DNA sequence from nonimmunocompromised individuals. J. Virol., 64, 3139-3143 (1990). PMID 2159570.

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

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Sequence information

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 RDB19224_B1Gsp1-1.pdf check

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

Primer: pUC-CAPbs_up_F
Region: lac pro,lacO,insert 5'
Sequence file: RDB19224_B1Gsa.seq check
>03031_19224_B1Gs_2_pUC-CAPbs_up_F_B01_04_ABI24.ab1
    1 NNNNNNNNNN NNNNNCNNNC TNNTTAGGCA CCCCAGGCTT TACACTTTAT GCTTCCGGCT
   61 CGTATGTTGT GTGGAATTGT GAGCGGATAA CAATTTCACA CAGGAAACAG CTATGACCAT
  121 GATTACGCCA AGCTTGCATG CCTGCAGGTC GACTCTAGAG GATCCCAACA CTCTACCCCA
  181 CCTAAGAAGA AAAAAAAGGT AGAAGACCCT AAAGACTTTC CTGTAGATCT GCATGCATTC
  241 CTCAGTCAAG CTGTGTTTAG TAATAGAACT GTTGCTTCTT TTGCTGTGTA TACCACTAAA
  301 GAAAAAGCTC AAATTTTATA TAAGAAACTT ATGGAAAAAT ATTCTGTAAC CTTTATAAGT
  361 AGACATGGTT TTGGGGGTCA TAATATTTTG TTTTTTTTAA CACCACATAG ACATAGAGTT
  421 TCAGCAATTA ATAATTACTG TCAGAAACTA TGTACCTTTA GTTTTTTAAT TTGTAAAGGT
  481 GTGAATAAGG AATACTTGTT TTACAGTGCC TTGTGTAGAC AGCCATATGC AGTAGTGGAA
  541 GAAAGTATTC AGGGGGGCCT TAAGGAGCAT GACTTTAACC CAGAANAACC AGAAGAAACT
  601 AAGCANGNTT CATGGAAATT AGTTACACAG TANGCTTTGN ACACCNAGTG NGNNNNGTTT
  661 TCTNGCTNAN GGGNNTGTAC NTNANNTTTN NNNAAANCCN NNNCNNNGNA AAAANNNNNN
721 AANNNNNNNN NN
//
Primer: pUC-M13_-100
Region: insert 3'
Sequence file: RDB19224_B1Gsb.seq check
>03031_19224_B1Gs_2_pUC-M13_-100_A01_01_ABI24.ab1
    1 NNNNNNNNNN NNNNNNNNNG NTTTCCNNGT CNCGACGTTG TAAAACGACG GCCAGTGAAT
   61 TCGAGCTCGG TACCCGGGGA TCCTGTGTTT TCATCATCAC TGGCAAACAT TTCTTCATGG
  121 CAAAACAGGT CTTCATCCCA CTTCTCATTA AATGTATTCC ACCAGGATTC CCACTCATCT
  181 GTTCCATAGG TTGGCACCTA AAAACAAAAA ATTCAGTTTA TGTAAAAAAC AAAATGCCCT
  241 GCAAAAGAAA AATTGTGGTT TACCTTAAAG CTTTAGATCC CTGTAGGGGG TGTCTCCAAG
  301 AACCTTCTCC CAGCAATGAA GAGCTTCTTG GGTTAAGTCA CACCCAAACC ATTGTCTGAA
  361 GCAATCAAAG CAATAGCAAT CTATCCACAC AAGTGGGCTG CTTCTTAAAA ATTTTCTGTT
  421 TCTATGCCTT AATTTTAGCA TGCACATTAA ACAGGGGCAA TGCACTGAAG GATTAGTGGC
  481 ACAATTAGGC CATTCCTTGC AATAAAGAGT ATCAGAATTA GGAGGAAAAT CACAACCAAC
  541 CTCTGAACTA TTCCATGTAC CAAAATCAGG CTGATGAGCA ACTTTTACAC CTTGTTCCNT
  601 TTTTTTATAT AAAAAGTTCA TTCTCTTCAN TTTGNCTTCG NCCCCACCTT TATCNNGGTG
  661 AAGNNCTTTG CATTTTTTNN NANAANCTTT TCTNNTGANN NNNNNGNTTN CCCCNNGNNN
721 NNCNNTNNNN NNNNNN
//
Primer: JCsp_R2
Region: insert mid
Sequence file: RDB19224_B1Gsc.seq check
>03031_19224_B1Gs_2_JCsp_R2_C01_07_ABI24.ab1
    1 NNNNNNNNNN NCTGGTNNNA CTTTATTAAA ATGTACTGCA TATTACAATA AAGGCTTTTG
   61 ATTACAGCAT CTTTGTCTGC AACTGTCCAT ATCTGTCAAC ATATCTCATC ATGTCTGGGT
  121 CCCCTGGAAG TTCCTCTGTC CCCTCAAAAA CTCTAACCTC CTCTACCTGA GCATCCATGC
  181 CATACATAGG CTGCCCATCA ACTCTAGGGG TCCTTCTGTT AATTAAATCA GTAAGAAGGA
  241 AAGAAATTGG GTAGGGGTTT TTAACCCTCC TTTTTCTTAG CTGAACCTTA AAATATCTGG
  301 ACAGTCCTCT CCACTGCTGG GAACCAGATC TGTTAGTAAA CATGCCACAA ACATCCACAG
  361 CTGACAAATA CAAGTTGTCA CCTTTGCAAA GTGGCCCAAC ACCAAATTCA TCAAGCAGCA
  421 CTGTTGTGGC AGTGTTTGTT ATATGAAGAA CTGGAGGAAC ATTTTCTCCT CCTGTTAGTG
  481 TCCCAAAATA TCTTGTGTTT TCATTTCTGG TGGGATCAGG AACCCAACAT TCAACAGGAT
  541 ATGCTTTGTT CTTATCTAGG TACGCCTTGT GCTCTGTGTT CATTACTTGA GATTGCACTG
  601 TTGCATTCTT TGNAAAAATT GNTCCATCTG GGTANTTTGT TCTGTANTTA AAAACCACCC
  661 CCTGTAANTC NAAAGNNTNC CCCCNNNNGA AAAAAAANGN AAGCTNNNNN CCNGNNNNNN
721 NNTNNNNNNN NNN
//
Primer: JCsp_f1
Region: insert mid
Sequence file: RDB19224_B1Gsd.seq check
>03031_19224_B1Gs_2_JCsp_f1_D01_10_ABI24.ab1
    1 GNNNNNNNNN NNNNAACNNN CTTNTAAGAG GAGGAGTAGA AGTTCTAGAA GTTAAAACTG
   61 GGGTTGACTC AATTACAGAG GTAGAATGTT TTTTAACTCC AGAAATGGGT GACCCAGATG
  121 AGCATCTTAG GGGTTTTAGT AAGTCAATTT CTATATCAGA TACATTTGAA AGTGACTCCC
  181 CAAATAAGGA CATGCTTCCT TGTTACAGTG TGGCCAGAAT TCCACTACCC AATCTAAATG
  241 AGGATCTAAC CTGTGGAAAT ATACTAATGT GGGAGGCTGT GACCTTAAAA ACTGAGGTTA
  301 TAGGGGTAAC AACTTTGATG AATGTGCACT CTAATGGTCA AGCAACTCAT GACAATGGTG
  361 CAGGAAAGCC AGTGCAGGGC ACCAGCTTTC ATTTTTTTTC TGTTGGGGGG GAGGCTTTAG
  421 AATTACAGGG GGTGGTTTTT AACTACAGAA CAAAGTACCC AGATGGAACA ATTTTTCCAA
  481 AGAATGCAAC AGTGCAATCT CAAGTAATGA ACACAGAGCA CAAGGCGTAC CTAGATAAGA
  541 ACAAAGCATA TCCTGTTGAA TGNTGGGTTC CTGATCCCNC CAGAAATGAA AACACAAGAN
  601 ATTTTGGGAN ACTAACAGGA GGANAAAATG NTCCTCCNGT NCNNCNTATN ACNAACACTG
  661 NNNCNNCANN GCTGNNNNNN GNNNTTNGNN GNNGGGNNNN NTNNNNANNG NNNNNNNNNN
//
Primer: Jcsp_f4
Region: insert mid
Sequence file: RDB19224_B1Gse.seq check
>03031_19224_B1Gs_J2_csp_f4_E01_13_ABI24.ab1
    1 NNNNNNNNNN NNNNNNGNAN AAACAAGGGA ATTTCCCTGG CCTCCTAAAA AGCCTCCACG
   61 CCCTTACTAC TTCTGAGTAA GCTTGGAGGC GGAGGCGGCC TCGGCCTCCT GTATATATAA
  121 AAAAAAGGGA AGGTAGGGAG GAGCTGGCTA AAACTGGATG GCTGCCAGCC AAGCATGAGC
  181 TCATACCTAG GGAGCCAACC AGCTGACAGC CAGAGGGAGC CCTGGCTGCA TGCCACTGGC
  241 AGTTATAGTG AAACCCCTCC CATAGTCCTT AATCACAAGT AAACAAAGCA CAAGGGGAAG
  301 TGGAAAGCAG CCAGGGGAAC ATGTTTTGCG AGCCAGAGCT GTTTTGGCTT GTCACCAGCT
  361 GGCCATGGTT CTTCGCCAGC TGTCACGTAA GGCTTCTGTG AAAGTTAGTA AAACCTGGAG
  421 TGGAACTAAA AAAAGAGCTC AAAGGANTTT AATTTTTTTG TTAGAATTTT TGCTGGACTT
  481 TTGCACAGGT GAAGACAGTG TAGACGGGAA AAAAAGACAG AAACACAGTG GTTTGACTGA
  541 NCAGANATAC AGTGCTTTGC CTGAACCAAA AGCTACATAN GTAAGTAATG NTTTTTTTTT
  601 GTGNTTTCNN GNTCNTGGGT GNCGCACTTG CACTTTTGGG GGNNNNANNN GCNACNGNTN
661 CNGNNNNNCT GCNGCCNNNG GANTTNNNNN ANNNNNANNN NNNNNNN
//

Please visit Sequencing and PCR primers for primer information.


References

Original, user report and related articles

original Yogo, Y., Isolation of a possible archetypal JC virus DNA sequence from nonimmunocompromised individuals. J. Virol., 64, 3139-3143 (1990). PMID 2159570.

2021.08.27

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