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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattattcaatcctctctgattcttcacctcttctcttcaattttggatgcatagaactgtgaatccgaaatatctattctgaatcaaagaaatgatttttcaatctgggtgactcacaagtacgaggttttttttgtttatgtggcagATGGCTAAAACACAGAAGAATAAAGCTACTTCTCATCATCTGGGTTTGTTAAAG

Basic information

species Arabidopsis thaliana
transcript AT4G39520.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39520.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv07s0031g01620.t01 (Vitis vinifera), 3'ss of exon 1
gtaattattcaatcctctctgattcttcacctcttctcttcaattttggatgcatagaactgtgaatccgaaatatctattctgaatcaaagaaatgatttttcaatctgggtgactcacaagtacgaggttttttttgtt-tatgtggcagATGGCTAAAACACAGAAGAATAAAGCTACTTCTCATCATCTGGGTTTGTTAAAG
                                         | || |  |   ||  || ||  | |  | | |   |  |      ||  | |||  ||||  | |    ||||| ||    |    | |||  |||||| | | | ||||||||| | ||| |||||||||||||||||  ||||||||||||| |||||||||
-----------------------------------------agttgtaaa---attcaaatgatacttaggagttcttggttc----catggtaattgttttggagtt---gtgacaca-gcctttatgatttgctttgttgttttttgcagATGGCAAGAACTCAGAAGAATAAAGCTACAGCTCATCATCTGGGCTTGTTAAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttttcaatctgggtgactcacaagtacgaggttttttttgtttatgtggcagATGGCTAAAACACAGAAGAATAAAGCTACTTCTCATCATCTGGGTTTGTTAAAG
                 gactcac  putative branch site (score: 2)
                                  ttttttttgtttat  putative PPT
                                  ttttttttgtttatgt  TA-rich tract