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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatcttaaatccaatgttttcattagtttggggcatttgccacaagtatctaatttcgcttttgcttctcatcttataaatagATGTGGGGAATGGTGCCGACTTCCTGTTATCACTCCATGTAGACACCTGTTGTGCCTTGATTGTGTTGCTCTTGATAGCGAAAGGTGTACTATTTCTGGT

Basic information

species Arabidopsis thaliana
transcript AT3G54460.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G54460.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os01g72310.1 (Oryza sativa), 3'ss of exon 2
----gtatatcttaaatccaatgttttcattagtttggggcatttgccacaagtatctaatttcgcttttgcttctcatcttataaatagATGTGGGGAATGGTGCCGACTTCCTGTTATCACTCCATGTAGACACCTGTTGTGCCTTGATTGTGTTGCTCTTGATAGCGAAAGGTGTACTATTTCTGGT
    | |    |||||   ||   | |   || | |    || ||   |  | | ||     |    ||| ||| |     ||||   || ||  | || ||||||||  | |||||| |||| || ||| | || |||||||||||||||||||| ||||||||||| || |  || ||  |  |||| 
gtatgaaaggtttaaacaaaaatatatatgtaatatccatcactt-tgatgattttccttaataaaatttccttattgc--tatattcagGTGCAGAGATTGGTGCCGCTTGCCTGTTGTCACGCCCTGTCGGCATCTGTTGTGCCTTGATTGTGTAGCTCTTGATAGTGAGAAATGCACGTTACCTGGC

upper sequence: AT3G54460.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G379804_T01 (Zea mays), 3'ss of exon 1
gtatatcttaaatccaatgttttcattagtttggggcatttgccacaagtatctaatttcgcttttgcttctcatcttataaatagATGTGGGGAATGGTGCCGACTTCCTGTTATCACTCCATGTAGACACCTGTTGTGCCTTGATTGTGTTGCTCTTGATAGCGAAAGGTGTACTATTTCTGGT
   ||    |  |    |  |   || |  ||     ||    |||| |||| |   ||   ||    |  ||   ||      || ||| | |  ||||| ||  | ||||| ||||| || ||| |||| || ||||||||||| ||||| ||||||||||| ||||  || ||  |  | |||
--gtacaggagcttttgtaataagatcatattaat-tatcaatcaca-gtatttccctta--ttcaaatgttcgcattgctttcagGTGTAGCGTTTGGTGTCGCTTGCCTGTGATCACACCCTGTCGACATCTTTTGTGCCTTGACTGTGTAGCTCTTGATAGTGAAAAATGCACATTACCAGGT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggggcatttgccacaagtatctaatttcgcttttgcttctcatcttataaatagATGTGGGGAATGGTGCCGACTTCCTGTTATCACTCCATGTAGACACCTGTTGTGCCTTGATTGTGTTGCTCTTGATAGCGAAAGGTGTACTATTTCTGGT
                   atctaat  putative branch site (score: 3)
                         tttcgcttttgcttct  CT-rich tract
                                        tcatcttataaata  TA-rich tract