Resource Type:
Analysis
Name:
Daucus carota genome V.2 SSR Detection with MISA
Description:
SSRs were detected in the Daucus carota V.2 assembly (LNRQ01) using misa, and when possible primers were designed with primer3.
misa detection parameters 2-6 3-4 4-3 5-3 6-3 7-3 8-3 and interruptions 10
This analysis has not been published.
Data from this analysis can be viewed in JBrowse here.
File:
| File | Type |
|---|---|
| DCARv2 CarrotOmics SSR JBrowse GFF3 | GFF3 |
| Carrot Genome Assembly DCARv2 Sequence Original Naming Scheme | FASTA format |
Publication:
- Iorizzo M, Ellison S, Senalik D, Zeng P, Satapoomin P, Huang J, Bowman M, Iovene M, Sanseverino W, Cavagnaro P, Yildiz M, Macko-Podgórni A, Moranska E, Grzebelus E, Grzebelus D, Ashrafi H, Zheng Z, Cheng S, Spooner D, Van Deynze A, Simon P. A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution.. Nature genetics. 2016 06; 48(6):657-66.
- Thiel T, Michalek W, Varshney RK, Graner A. Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.).. TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik. 2003 Feb; 106(3):411-22.
Program, Pipeline, Workflow or Method Name:
misa; primer3
Program Version:
misa 14/12/01 (version 1.0); primer3 2.3.6
Date Performed:
Thursday, July 7, 2016 - 00:00
Data Source:
- Source Name
- : LNRQ01000000
- Source URI
- : https://www.ncbi.nlm.nih.gov/nuccore/LNRQ01000000