A-GEOD-3715 - Nimblegen apple 60-mer oligo array (March 2005)

Malus x domestica
Array Manufacturer: NimbleGen Systems, Inc. , Distribution: custom-commercial, Technology: in situ oligonucleotide, This set includes 60-mer oligonucleotides for 55,155 apple contigs assembled form available apple ESTs (March 2005) and 75 locally sequences cDNA sequences. EST sequences were assembled using TIGR TGICL assembly software. Assembly was done twice, one for 'gala' variety only (75751 ESTs) and second for all apple (183732 ESTs.) In addition 400 apple mRNA sequences were used as assembly seeds. Contigs resulting from both assemblies were used for oligo design. Gene DNA strand for oligo design was determined using BLASTX against Arabidopsis and NCBI nr databases. Oligos were designed from both strands for each sequence with no significant BLAST hit.

Comment[local_PSU_ID] = sequence ID from local EST assembly

Reporter Sequence = contig sequences
Izabela Makalowska(izabelam@psu.edu)
Experiment E-GEOD-4762