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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATATATCTCTCGAGGTCATCAAAGTATACTGGGAACTACGTTATGCATCAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcactcatacccatatacattcaagtgatgctattggtgcatgacaaatgggctgtgttttcgtttgtttgtatgacatgttttaaaatttttattgtccag

Basic information

species Arabidopsis thaliana
transcript AT1G79940.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA09G08830.1 (Glycine max), 5'ss of exon 6
TTATATATCTCTCGAGGTCATCAAAGTATACTGGGAACTACGTTATGCATCAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcactc---atacccatatacattcaagtgatgctattggtgcatgacaa-atgggctgtgttttcgtttgtttgtatgacatgttttaaaatttttattgtccag
|| | |||||||| || |||||||||||||| || ||||| || |||||||||||||| ||| | || ||||| || ||||| || ||| ||||||| ||||||||  |||     || | |  ||   ||   ||    | ||  | | || ||  ||    || || |       | || ||   |||   | |    ||          
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGCAACTATGTGATGCATCAAACACTTTCCACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatactttgtttatctagttatgctc---tgtcagtctttattcttgccattattctttgagtatatagagatctgaattttatgcagtcagcgattg---------

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G20400.1 (Glycine max), 5'ss of exon 6
TTATATATCTCTCGAGGTCATCAAAGTATACTGGGAACTACGTTATGCATCAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcactcatacccatatacattcaagtgatgcta---ttggtgcatgacaa-atgggctgtgttttcgtttgtttgtatgacatgttttaaaatttttattgtccag
|| | |||||||| || |||||||||||||| || ||||| || |||||||||||||| ||  | || ||||| || ||||| || ||| ||||||| ||||||||  ||         |||  | | |||   ||  |   ||  | | || ||  ||    || |  |       | || ||   |||||  | |    ||         
TTGTTTATCTCTCCAGATCATCAAAGTATACCGGAAACTATGTGATGCATCAAACACTTTCTACTTACTATTACCTTATGAAGCCTTCTTTGGCCCCCAGgtatatatacat---tgtttatgtagttaagctctgtcagtctttattcttgccattattctttgaggatatagagatctgaattttatgttg-acagccgttg--------

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv16s0050g01460.t01 (Vitis vinifera), 5'ss of exon 5
TTATATATCTCTCGAGGTCATCAAAGTATACTGGGAACTACGTTATGCATCAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcactcatacccatatacattcaagtgatgctattggtgcatgacaaatgggctgtgttttcgtttgtttgtatgacatgttttaaaatttttattgtccag
|| | ||||| || || ||| |||| |||||||||||||| || ||||||||||| || ||  | || |||||  | |||||||| ||| |||||||||||||| |    | ||     | |      || | ||   |||  | | | |  |||    |    |   ||    |  |   |  |||| |     |       |    
TTGTTTATCTATCAAGATCAGCAAAATATACTGGGAACTATGTCATGCATCAAACTCTGTCTACTTACTATTACTTCATGAAACCTTCTTTGGCCCCAAGgtat-tatgtttatttaatttttttcctaattcata--atttattcttaaagaatat-ttccactcaagtagagtcttggaaggtgttatttggatacagcctt----

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|116415762|gb|EG458354.1|EG458354
EST:     CAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAG                         CAAAGTTATGGAAG
genomic: CAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcac ... tattgtccagCAAAGTTATGGAAG
EST: gi|116420065|gb|EG462657.1|EG462657
EST:     AAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCCAAG                         CAAAGTTATGGAAGTTTTCACCAAGGCAGCTGAGTACATGGAGATTCCAG
genomic: AAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGG-CCCCAAGgtatattcac ... tattgtccagCAAAGTTATGGAAGTTTTCACCAAGGCAGCTGAGTACATGGAGATTCCAG
EST: gi|164120830|gb|ES141336.1|ES141336
EST:     ACCCTCTCTGGCCCCAAG                         CAAAGTTATGGAAGTTTTCACCAAGGCAGCTGAGTACATGGAGATTCCAGT
genomic: ACCCTCTCTGGCCCCAAGgtatattcac ... tattgtccagCAAAGTTATGGAAGTTTTCACCAAGGCAGCTGAGTACATGGAGATTCCAGT
EST: gi|164163057|gb|ES094769.1|ES094769
EST:     CAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAG                         CAAAGTTATGGAAGTTTTCACCAAGGCAG
genomic: CAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcac ... tattgtccagCAAAGTTATGGAAGTTTTCACCAAGGCAG
EST: gi|116473043|gb|EG515635.1|EG515635
EST:     CAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAG                         CAAAGTTATGGAAGTTTTCACCAAGGCAGCTGAGTACATGGAGATTCCAGT
genomic: CAAACACTCTCCGCATATTATTATCTAATGAAACCCTCTCTGGCCCCAAGgtatattcac ... tattgtccagCAAAGTTATGGAAGTTTTCACCAAGGCAGCTGAGTACATGGAGATTCCAGT