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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcttggtccctttcttaacaagaatttatacattatgtctcaatgacatttttatgaaggttttatatatatgatctcaaattggatattgattagggttgcttataagaaagagcaaaaagtattcatgtttgtttttttaattgttttttgcagGTCATGGTGGATCCAGAGCAGCTGAGTATGTGAAGCGTCACCTTTTCAGCAATCTTATTACTCATCCTAAGTTCATCTCTGACACCAAATCTGCAATAG

Basic information

species Arabidopsis thaliana
transcript AT5G24940.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G24940.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM5G829894_T02 (Zea mays), 3'ss of exon 1
gtattcttggtccctttcttaacaagaatttatacattatgtctcaa-tgacattt-ttatgaaggttttatatatatgatctcaaattggatattgattagggttgcttataagaaagagcaaaaagtattcatgtttgtttttttaattgttttttgcagGTCATGGTGGATCCAGAGCAGCTGAGTATGTGAAGCGTCACCTTTTCAGCAATCTTATTACTCATCCTAAGTTCATCTCTGACACCAAATCTGCAATAG
                       | | |||        |  ||| || ||| ||   ||     ||||||    ||   | | |    ||     |||    ||| | ||       |  |   |  | ||        | |||| |      ||| || ||||||||| |||  | |||||||||||||||| ||||  ||||||||||||||| | || |  || || ||||||||| |||| |||||  |||| || |
---------------------gtatgtattcgctagcgacatctgaagtgatatcaattcccgcggttttcctaatgccaccactctctga----tgaagttggtagtttgagttgtaaggttgagggcat--------ggttttctg-----tttctgtagGTCATGGAGGAGTCCGAGCAGCTGAGTATGTTAAGCAGCACCTTTTCAGCAATTTAATCAAACACCCAAAGTTCATCACTGATACCAAGGCTGCTATCG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttataagaaagagcaaaaagtattcatgtttgtttttttaattgttttttgcagGTCATGGTGGATCCAGAGCAGCTGAGTATGTGAAGCGTCACCTTTTCAGCAATCTTATTACTCATCCTAAGTTCATCTCTGACACCAAATCTGCAATAG
                                    ttttaat  putative branch site (score: 3)
                                          ttgtttttt  CT-rich tract
               aaaaagtattcatgtt  TA-rich tract