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Life Science Database Archive
RGP estmap2001

Details of rice EST mapping results

Data detail

info Data name Details of rice EST mapping results
info DOI 
info Description of data contents 

The data contains the detailed results of PCR-based YAC screening with the clone-specific EST primers.

info Data file 
File name:
rgp_estmap2001_detail.zip
File URL:
https://dbarchive.biosciencedbc.jp/data/rgp-estmap2001/LATEST/rgp_estmap2001_detail.zip
File size:
242 KB
info Simple search URL 
info Data acquisition method 

We used clone-specific primer pairs designed from 6713 unique EST sequences (3' end) derived from 19 cDNA libraries.

info Data analysis method 

SEGMAP (version 3.48) was used for the analysis of YAC screening data and the establishment of the EST map.
DNA gel blot hybridization of YAC or rice genomic DNA with genetic markers or EST clones was conducted using the enhanced chemiluminescence system (Amersham, Buckinghamshire, UK).

 

Notes
#; floating markers on the genetic map
c; chimeric YAC clones
*; PCR band size longer than predicted
Ann T; 60 ℃ unless otherwise indicated
NI; YACs with unknown insert

info Number of data entries 

6,760 entries

Data itemDescription
Anchor Genetic markers used for YAC landing
Chrom. No. Chromosome number
Position (cM) Genetic distance (cM)
EST Clone EST Clone (sites) name
DDBJ Acc FW DDBJ accession of the EST clone (Forward sequence)
DDBJ Acc RV DDBJ accession of the EST clone (Reverse sequence)
Positive YACs Positive YAC names
PCR Primer PCR primer name
Amplified Band Size Amplified PCR band size (kb)
Ann T Annealing temperature (℃)
5'-Primer Sequence Primer sequence (5' primer, each 20 bases)
3'-Primer Sequence Primer sequence (3' primer, each 20 bases)
Map Image File Image file name of the rice transcript map