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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgaaagcttaggtagcgaataacttaaacagttgtggactttgagtaaggctaacttttggtgaggtggtggcagATATTTTACTTCATTGGGTTTGGGTTCTTCTGTCTGGAGTCACTCGTCAGCATCTGGGTTATTCAG

Basic information

species Arabidopsis thaliana
transcript AT2G20840.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G20840.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA12G11820.2 (Glycine max), 3'ss of exon 11
------------------------------------------------------------------gtaagttgaaagcttaggtagcgaataacttaaacagttgtgg----actttgag-taaggctaacttttggtgaggtgg-tggcagATATTTTACTTCATTGGGTTTGGGTTCTTCTGTCTGGAGTCACTCGTCAGCATCTGGGTTATTCAG
                                                                   ||   | |     ||   |  | ||   ||    |||| ||     || ||||| | | | |||  |||| || | ||  | ||||||||| ||||||||||| ||||| || || ||||| |||||| |  | |||||||||||||| |||
gtaagtttcaattgcgtatatattggcttttataataatgacctaccttggatgataaatagttggatatagttattctgtaccaaagggatgcattctcaagttatgatttcacattgagatgatgttaatatttgttgtgctgaattgcagATATTCTACTTCATTGGATTTGGCTTTTTTTGTCTCGAGTCAGTGCTGAGCATCTGGGTTATACAG

upper sequence: AT2G20840.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA06G45160.1 (Glycine max), 3'ss of exon 11
-----------------------------------------gtaagttgaaagc-ttaggtagc----gaataacttaaacagttgtgg----actttgagtaaggctaacttttggtgaggtggtggcagATATTTTACTTCATTGGGTTTGGGTTCTTCTGTCTGGAGTCACTCGTCAGCATCTGGGTTATTCAG
                                         ||  | |  ||   ||  ||| |    | |||  ||   ||||| |      || |||||      | | | || |||  |   | ||||||||| ||||||||||| |||||  | |||||||| |||||| |  | |||||||||||||| |||
gtaagtttcaattgcgtatatattgccttatataataaacagttggatataattattttgtaccagagggatacattctccagttataatttcacattgagatgatattagtatttgtgctg-aattgcagATATTCTACTTCATTGGATTTGGCCTTTTCTGTCTCGAGTCAGTGCTGAGCATCTGGGTTATACAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86084332|gb|DR380091.1|DR380091
EST:     AGGAATATTGCCGGCGATCGACGTATTGAGTGGGAATATCTTGGTCGGG                         ATATTTTACTTCATTGGGTTTGGGTTCTTCTGTCTGGAGTCACTCGTCAGC
genomic: AGGAATATTGCCGGCGATCGACGTATTGAGTGGGAATATCTTGGTCGGGgtaagttgaa ... gtggtggcagATATTTTACTTCATTGGGTTTGGGTTCTTCTGTCTGGAGTCACTCGTCAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttaaacagttgtggactttgagtaaggctaacttttggtgaggtggtggcagATATTTTACTTCATTGGGTTTGGGTTCTTCTGTCTGGAGTCACTCGTCAGCATCTGGGTTATTCAG
                            ggctaac  putative branch site (score: 2)
                               taactttt  TA-rich tract