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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttgaaaacaagtttctcatagaggaaatttctgcaagtgtcataaagtttgtttttaattcataatgtttttatcttttattgcagTTATACTTTGTTCAAAACGTTCAATGATCTAGTACTTCTCGCGAAAGGTGGCCTTACTGTTTACCACGGATCAGTCAACAAAGTTGAGGAATACTTCTCG

Basic information

species Arabidopsis thaliana
transcript AT1G53390.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G53390.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os06g51460.2 (Oryza sativa), 3'ss of exon 9
gtatcttgaaaacaagtttctcatagaggaaatttctgcaagtgtcataaagtttgtttttaattcataatgtttttatcttttattgcagTTATACTTTGTTCAAAACGTTCAATGATCTAGTACTTCTCGCGAAAGGTGGCCTTACTGTTTACCACGGATCAGTCAACAAAGTTGAGGAATACTTCTCG
        ||      || ||| |       |   ||  |  ||    |     |  |   | || ||  ||  ||||| || | |||||| ||||| ||||  || | |||  ||||| |  |||||||||||||||||||| | || |||||||| ||| | || || ||||| ||||||||||| || 
------gtaaggttgtttgctctttttctccacaactttatatgcaccactcactcatgcaactttatgctgagtttattttcttttgcagCTATACATTGTATAAGATGTTTGATGATTTGATACTTCTCGCGAAAGGTGGCTTGACGGTTTACCATGGACCTGTGAAGAAAGTGGAGGAATACTTTTCA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaagtgtcataaagtttgtttttaattcataatgtttttatcttttattgcagTTATACTTTGTTCAAAACGTTCAATGATCTAGTACTTCTCGCGAAAGGTGGCCTTACTGTTTACCACGGATCAGTCAACAAAGTTGAGGAATACTTCTCG
                     ttttaat  putative branch site (score: 3)
                                    tttttatcttttatt  putative PPT
          ataaagtttgttttta  TA-rich tract