Illumina GA/Oligo info: Difference between revisions

From ZhangLabWiki
Jump to navigation Jump to search
>Dinh
>Dinh
Line 62: Line 62:
| align="center" style="background:#f0f0f0;"|'''Reference'''
| align="center" style="background:#f0f0f0;"|'''Reference'''
|-
|-
| Left Probe Linker, No barcode (forward) || AmpF6.3Sol || ||None||None
| Left Probe Linker, No barcode (forward) || AmpF6.3Sol || AATGATACGGCGACCACCGACACTCTCAGATGTTATCGAGGTCCGA ||None||None
|-
|-
| Right Probe Linker, Barcode 1: '''CGTGAT''' (reverse)|| AmpR6.3Ind1 ||AATGATACGGCGACCACCGACACTCTCAGATGTTATCGAGGTCCGA ||None||None
| Right Probe Linker, Barcode 1: '''CGTGAT''' (reverse)|| AmpR6.3Ind1 || CAAGCAGAAGACGGCATACGAGATCGTGATGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 2: '''ACATCG''' (reverse)|| AmpR6.3Ind2 || ||None||None
| Right Probe Linker, Barcode 2: '''ACATCG''' (reverse)|| AmpR6.3Ind2 || CAAGCAGAAGACGGCATACGAGATACATCGGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 3: '''GCCTAA''' (reverse)|| AmpR6.3Ind3 || ||None||None
| Right Probe Linker, Barcode 3: '''GCCTAA''' (reverse)|| AmpR6.3Ind3 || CAAGCAGAAGACGGCATACGAGATGCCTAAGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
| Right Probe Linker, Barcode 4: '''TGGTCA''' (reverse)|| AmpR6.3Ind4 || CAAGCAGAAGACGGCATACGAGATTGGTCAGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 4: '''TGGTCA''' (reverse)|| AmpR6.3Ind4 || ||None||None
| Right Probe Linker, Barcode 5: '''CACTGT''' (reverse)|| AmpR6.3Ind5 || CAAGCAGAAGACGGCATACGAGATCACTGTGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
| Right Probe Linker, Barcode 6: '''ATTGGC''' (reverse)|| AmpR6.3Ind6 || CAAGCAGAAGACGGCATACGAGATATTGGCGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 5: '''CACTGT''' (reverse)|| AmpR6.3Ind5 || ||None||None
| Right Probe Linker, Barcode 7: '''GATCTG''' (reverse)|| AmpR6.3Ind7 || CAAGCAGAAGACGGCATACGAGATGATCTGGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 6: '''ATTGGC''' (reverse)|| AmpR6.3Ind6 || ||None||None
| Right Probe Linker, Barcode 8: '''TCAAGT''' (reverse)|| AmpR6.3Ind8 || CAAGCAGAAGACGGCATACGAGATTCAAGTGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 7: '''GATCTG''' (reverse)|| AmpR6.3Ind7 || ||None||None
| Right Probe Linker, Barcode 9: '''CTGATC''' (reverse)|| AmpR6.3Ind9 || CAAGCAGAAGACGGCATACGAGATCTGATCGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 8: '''TCAAGT''' (reverse)|| AmpR6.3Ind8 || ||None||None
| Right Probe Linker, Barcode 10: '''AAGCTA''' (reverse)|| AmpR6.3Ind10 || CAAGCAGAAGACGGCATACGAGATAAGCTAGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 9: '''CTGATC''' (reverse)|| AmpR6.3Ind9 || ||None||None
| Right Probe Linker, Barcode 11: '''GTAGCC''' (reverse)|| AmpR6.3Ind11 || CAAGCAGAAGACGGCATACGAGATGTAGCCGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
|-
| Right Probe Linker, Barcode 10: '''AAGCTA''' (reverse)|| AmpR6.3Ind10 || ||None||None
| Right Probe Linker, Barcode 12: '''TACAAG''' (reverse)|| AmpR6.3Ind12 || CAAGCAGAAGACGGCATACGAGATTACAAGGCTAGGAACGATGAGCCTCCAAC ||None||None
|-
| Right Probe Linker, Barcode 11: '''GTAGCC''' (reverse)|| AmpR6.3Ind11 || ||None||None
|-
| Right Probe Linker, Barcode 12: '''TACAAG''' (reverse)|| AmpR6.3Ind12 || ||None||None
|-
|-
|}
|}

Revision as of 21:44, 15 July 2010

Name in original paper Nick-name Sequence (5\'->3\') Sequence Modification Reference
A_adapter_t Long Y-adaptor (top) AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATC*T 3'-Phosphorothioate bond [1]
A_adapter_b Long Y-adaptor (bottom) GATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTCTTCTGCTTG None [1]
PE_t_adapter Regular Y-adaptor (top) ACACTCTTTCCCTACACGACGCTCTTCCGATC*T 3'-Phosphorothioate bond [2]
PE_b_adapter Regular Y-adaptor (bottom) /5Phos/GATCGGAAGAGCGGTTCAGCAGGAATGCCGAG 5'-phosphorylation [2]
PCR_F Sol. Amp. (Forward) AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATC*T 3'-Phosphorothioate bond [2]
PCR_R Sol. Amp. (Reverse) CAAGCAGAAGACGGCATACGAGATCGGTCTCGGCATTCCTGCTGAACCGCTCTTCCGATC*T 3'-Phosphorothioate bond [2]
Syb_FP5 Sol. Quant. (Forward) ATGATACGGCGACCACCGAG None [2]
Syb_RP7 Sol. Quant. (Reverse) CAAGCAGAAGACGGCATACGAG None [2]
PE_t_N2 Y-adaptor for MmeI ligation (top) ACACTCTTTCCCTACACGACGCTCTTCCGATCTN*N 3'-Phosphorothioate bond
PE_N2 Y-adaptor for MmeI ligation (top) ACACTCTTTCCCTACACGACGCTCTTCCGATC*NN 3'-Phosphorothioate bond
PE_b_A Y-adaptor for MmeI ligation (bottom) /5Phos/AGATCGGAAGAGCGGTTCAGCAGGAATGCCGAG 5'-phosphorylation
PE_t_Met bis-seq(Forward) A/iMe-dC/A/iMe-dC/T/iMe-dC/TTT/iMe-dC//iMe-dC//iMe-dC/TA/iMe-dC/ACGACG/iMe-dC/T/iMe-dC/TT/iMe-dC/CGAT/iMe-dC/*T 3-phosphorothiate, 5'-Methyl
PE_b_Met bis-seq (Reverse) /5Phos/GATCGGAAGAGCGGTT/iMe-dC/AG/iMe-dC/AGGAATG/iMe-dC/CGAG 5'-phosphorylated, 5'-Methyl
RC_PE_t_adapter RC_Regular Y-adaptor with Biotin (top) /5Biosg/TTTTTTTAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT 5'-Biotin
RC_PE_b_adapter RC_Regular Y-adaptor with Biotin (bottom) /5Biosg/TTTTTTTCTCGGCATTCCTGCTGAACCGCTCTTCCGATC 5'-Biotin
Small RNA Sequencing Primer Solexa-TSS-Seq CGACAGGTTCAGAGTTCTACAGTCCGACGATC

Multiplexing Primers

Name Nick-name Sequence (5\'->3\') Sequence Modification Reference
Left Probe Linker, No barcode (forward) AmpF6.3Sol AATGATACGGCGACCACCGACACTCTCAGATGTTATCGAGGTCCGA None None
Right Probe Linker, Barcode 1: CGTGAT (reverse) AmpR6.3Ind1 CAAGCAGAAGACGGCATACGAGATCGTGATGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 2: ACATCG (reverse) AmpR6.3Ind2 CAAGCAGAAGACGGCATACGAGATACATCGGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 3: GCCTAA (reverse) AmpR6.3Ind3 CAAGCAGAAGACGGCATACGAGATGCCTAAGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 4: TGGTCA (reverse) AmpR6.3Ind4 CAAGCAGAAGACGGCATACGAGATTGGTCAGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 5: CACTGT (reverse) AmpR6.3Ind5 CAAGCAGAAGACGGCATACGAGATCACTGTGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 6: ATTGGC (reverse) AmpR6.3Ind6 CAAGCAGAAGACGGCATACGAGATATTGGCGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 7: GATCTG (reverse) AmpR6.3Ind7 CAAGCAGAAGACGGCATACGAGATGATCTGGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 8: TCAAGT (reverse) AmpR6.3Ind8 CAAGCAGAAGACGGCATACGAGATTCAAGTGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 9: CTGATC (reverse) AmpR6.3Ind9 CAAGCAGAAGACGGCATACGAGATCTGATCGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 10: AAGCTA (reverse) AmpR6.3Ind10 CAAGCAGAAGACGGCATACGAGATAAGCTAGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 11: GTAGCC (reverse) AmpR6.3Ind11 CAAGCAGAAGACGGCATACGAGATGTAGCCGCTAGGAACGATGAGCCTCCAAC None None
Right Probe Linker, Barcode 12: TACAAG (reverse) AmpR6.3Ind12 CAAGCAGAAGACGGCATACGAGATTACAAGGCTAGGAACGATGAGCCTCCAAC None None