Study Info
INDA Accessions: INRP000360
INSDC Accessions: PRJEB94398, ERP177270
- Title: Assembly and analysis of RNAseq data from Allium hookeri
- Data Type : RNASeq
- Descriptive Title: Allium hookeri is a herbaceous spice which is very popular as a food component in North East Indian cuisine. It has gained importance for its medicinal properties as it is utilized in traditional medicine. Characterization and analysis of the plant is necessary before proclaiming it as a medicinal plant of importance.
-
Organism:
Scientific Name(Taxon Id): Allium hookeri (105303) Common Name:
Other Info
- Abstract: Hooker chives Allium hookeri belonging to Allium species are one of the traditional medicinal herbs, widely used in the state of Manipur, northeast India. However, the availability of genetic resources is limited in this species. In order to understand the molecular basis of its medicinal properties, the availability of genetic resources is a must. Herein the transcriptome and small RNA libraries of root tissue are prepared and analyzed by next generation sequencing on Illumina platform. From the transcriptome approximately 102.9 million clean sequence reads were obtained and used for de novo assembly, which generated 117189 non-redundant transcripts. Of these transcripts 39472 were annotated for their function. Whereas in case of small RNA library out of 33.58 million raw reads generated, 33.54 million clean reads were obtained which were checked for microRNA prediction. We identify a total of 108 conserved miRNAs and 14novel miRNAs in A. hookeri.
- Linked publications:
- Center Name: Roseeta Mutum, Sudripta Das, BRIC-IBSD
- Number of Base(Total) Mbp: 19,964,441,960
- Size in bytes(Total): 10,463,106,440
- Number of sample:
- Number of Runs:
- Number of Sequences:
- Number of Assembly:
- Number of Variant files:
Back