|
| Status |
Public on Jan 15, 2018 |
| Title |
WT_seedling_Rep_2 |
| Sample type |
SRA |
| |
|
| Source name |
Four weeks old seedlings
|
| Organism |
Oryza sativa |
| Characteristics |
subspecies, cultivar: Rice, Indica, Pusa Basmati 1 (PB1)
tissue: Four weeks old seedlings
genotype: Wild type
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from three different tissues, 4week old seedlings, young panicle and mature panicle of both wild-type and transgenic knock-down lines were extracted using Trizol (Invitrogen) reagent.
Size fractionation
|
| |
|
| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
3’ adapter (5’-TGGAATTCTCGGGTGCCAAGG-3’) was removed from sequenced reads using UEA small RNA workbench.
The small RNA reads of length 16nt-35nt filtered and were analyzed.
Supplementary_files_format_and_content: Text file containing 16nt-35nt long unique reads and their raw abundance after removal of adapter.
|
| |
|
| Submission date |
Dec 11, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Shivaprasad Padubidri V. |
| E-mail(s) |
[email protected]
|
| Phone |
+91 80 2366 6511
|
| Organization name |
National Center for Biological Sciences
|
| Department |
Plant epigenetics
|
| Street address |
GKVK Campus, Bellary road
|
| City |
Bangalore |
| ZIP/Postal code |
560065 |
| Country |
India |
| |
|
| Platform ID |
GPL21087 |
| Series (1) |
| GSE107904 |
Oryza sativa Argonaute 18 is a regulator of male sterility (sRNA-Seq) |
|
| Relations |
| BioSample |
SAMN08159992 |
| SRA |
SRX3461209 |
