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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaccattgacgccctgatcggttatcgattcttatttcgttccttctttcacacttctttcattgttttacatgttcttatacatttttacaccgtctttctccttatcttgtatagCTAATGAGGGTATATGGAGCTCTCATGTGGTCACTTGGGAAAGTTCTCAATACTCCTGAGGTCTCTCGTGTCTACATTGG

Basic information

species Arabidopsis thaliana
transcript AT3G20290.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 12
gttgaccattgacgcc-ctgatcggttatcgattcttatttcgttccttctttcacacttctttcattgttttacatgttcttatacatttttacaccgtctttctccttatcttgtat---agCTAATGAGGGTATATGGAGCTCTCATGTGGTCACTTGGGAAAGTTCTCAATACTCCTGAGGTCTCTCGTGTCTACATTGG
  | |  |||   ||  || ||  ||| |  |   ||||||  |   |  ||    || | ||  |||||||    | || | | | |  ||||    |  ||     |    ||||||   |||| |||||||| |||||||| || ||||||||||||||||| ||||| ||||||||||||||    ||||| || |||||
-gtaagaatttgtgctgctaattagttttatagg-ttattttatagatatttcactacatatt--attgtttagtgtcttttgacagacatttaacttgctttctgattggctttgtattgtagCTTATGAGGGTTTATGGAGCACTGATGTGGTCACTTGGGAAGGTTCTAAATACTCCTGAGGTTATGCGTGTTTATATTGG
















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|164212641|gb|ES016696.1|ES016696
EST:     ACAAGATCCGCGTTGTTCTGAATAAGGCTGACCAAGTGGACACTCAGCAG                         CTAATGAGGGTATATGGAGCTCTCATGTGGTCAC
genomic: ACAAGATCCGCGTTGTTCTGAATAAGGCTGACCAAGTGGACACTCAGCAGgttgaccatt ... tcttgtatagCTAATGAGGGTATATGGAGCTCTCATGTGGTCAC
EST: gi|125318500|gb|EL332585.1|EL332585
EST:     ACAAGATCCGCGTTGTTCTGAATAAGGCTGACCAAGTGGACACTCAGCAG                         CTAATGAGGGTATA
genomic: ACAAGATCCGCGTTGTTCTGAATAAGGCTGACCAAGTGGACACTCAGCAGgttgaccatt ... tcttgtatagCTAATGAGGGTATA
EST: gi|125208529|gb|EL223483.1|EL223483
EST:     ACAAGATCCGCGTTGTTCTGAATAAGGCTGACCAAGTGGACACTCAGCAG                         CTAATGAGGGTATATGGAGCTCTCATGTGGT
genomic: ACAAGATCCGCGTTGTTCTGAATAAGGCTGACCAAGTGGACACTCAGCAGgttgaccatt ... tcttgtatagCTAATGAGGGTATATGGAGCTCTCATGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttttacatgttcttatacatttttacaccgtctttctccttatcttgtatagCTAATGAGGGTATATGGAGCTCTCATGTGGTCACTTGGGAAAGTTCTCAATACTCCTGAGGTCTCTCGTGTCTACATTGG
                      tttttacaccgtcttt  CT-rich tract
            ttcttatacattttta  TA-rich tract