This is an open access reporitory to collect all used adapter sequences in currently commercial available and discontinued kits.
3' adapter for small RNA sequencing on Illumina platform
| Vendor | Kit | Version | 3' Adapter sequence |
|---|---|---|---|
| New England Biolabs | NEBNext Multiplex Small RNA Library Prep Kit for Illumina | V3 | 5'-AGATCGGAAGAGCACACGTCT-3' |
| Illumina | TruSeq Small RNA | Version | 5’-TGGAATTCTCGGGTGCCAAGG-3' |
| PerkinElmer | NEXTflex Small RNA Sequencing Kit ** | V3 | 5’-TGGAATTCTCGGGTGCCAAGG-3' |
| Qiagen | QIAseq miRNA Library Kit | Version | 5’-AACTGTAGGCACCATCAAT-3' |
| Lexogen | Small RNA-Seq Library Prep Kit | Version | 5’-TGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC-3' |
| SeqMatic | TailorMix miRNA Sample Preparation Kit | V2 | 5’-TGGAATTCTCGGGTGCCAAGG-3' |
| Takara | SMARTer smRNA-Seq Kit for Illumina | Version | 5’-AAAAAAAAAA-3' |
| TriLink | CleanTag Small RNA Library Prep Kit | Version | 5'-TGGAATTCTCGGGTGCCAAGG-3' |
| Diagenode | CATS small RNA-seq Kit | Version | 5'-GATCGGAAGAGCACACGTCTG-3' |
| GenXPro | TrueQuant SmallRNA Seq Kit for Ultra Low Input | Version | TODO |
| ~~ ~~ | |||
| ~~ ~~ |
**4 random bases
Kit Discontinued kit
Version 2 | 01.17
cutadapt -u 3 input_file.fastq | cutadapt -a AAAAAAAA - | cutadapt -a AAAAAAAN$ -a AAAAAAN$ -a AAAAAN$ - | cutadapt -a AGAGCACACGTCTG - | cutadapt -O 8 -g GTTCAGAGTTCTACAGTCCGACGATCNNN - | cutadapt -m 18 -o output_file.fastq -
Version 2 | 03.17
cutadapt -u 3 input_file.fastq | cutadapt -a AAAAAAAA - | cutadapt -a AAAAAAAN$ -a AAAAAAN$ -a AAAAAN$ - | cutadapt -a AGAGCACACGTCTG - | cutadapt -O 8 -g GTTCAGAGTTCTACAGTCCGACGATCNNN - | cutadapt -m 18 -o output_file.fastq -
Version 2 | 09.17
cutadapt --trim-n -a GATCGGAAGAGCACACGTCTG -a AGAGCACACGTCTG <input.file> | cutadapt -u 3 -a A{100} --no-indels -e 0.16666666666666666 - | cutadapt -O 8 --match-read-wildcards -g GTTCAGAGTTCTACAGTCCGACGATCSSS -m 18 -o <output.file> -
Any comments and contributions are welcome. Pull requests are welcome.
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