Daucus carota genome V.3 SSR Detection with MISA
Name
Daucus carota genome V.3 SSR Detection with MISA
Type
Analysis
Description
SSRs were detected in the Daucus carota V.3 assembly 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.
RESULTS OF MICROSATELLITE SEARCH ================================ Total number of sequences examined: 11 Total size of examined sequences (bp): 441,119,442 Total number of identified SSRs: 148,264 Number of SSR containing sequences: 11 Number of sequences containing more than 1 SSR: 11 Number of SSRs present in compound formation: 12,941 Distribution to different repeat type classes --------------------------------------------- Unit size Number of SSRs 2 52,385 3 30,622 4 38,281 5 16,265 6 7,217 7 2,622 8 872128,207 designed primer pairs
Software Name
misa + primer3
Software Version
1 + 2.3.7
Data Source Name
Carrot Genome Assembly DH1 v3.0
Relationship
The Analysis Daucus carota genome V.3 SSR Detection with MISA is a part of Genome Assembly Carrot Genome Assembly DH1 v3.0
Publication
- Rozen S, Skaletsky H. Primer3 on the WWW for general users and for biologist programmers.. Methods in molecular biology (Clifton, N.J.). 2000; 132:365-86.
- 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.
- Coe K, Bostan H, Rolling W, Turner-Hissong S, Macko-Podgórni A, Senalik D, Liu S, Seth R, Curaba J, Mengist MF, Grzebelus D, Van Deynze A, Dawson J, Ellison S, Simon P, Iorizzo M. Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots.. Nature plants. 2023 Oct; 9(10):1643-1658.
Biological Sample
SAMN03216637
File
| File | Type |
|---|---|
| DCARv3 SSR Detection with MISA | GFF3 |
Organism