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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagaatgacaattgtttcctggctatatgcatagcacctgctgaagaaatactgttactggcttttgtttgtactaatactccgatccaaaacttttcagTGCAAGCACAATGCAGAGTGTGGAGAGAACATTTCAAATCACAAGGGCAGACAAGGACCTTTTGGCCAAACCAGAGTACGATGTTCAG

Basic information

species Arabidopsis thaliana
transcript AT5G60410.4
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G60410.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G07590.1 (Glycine max), 3'ss of exon 8
aagaatgacaattgtttcctggctatatgcatagcacc----tgctgaagaaatactgttactggcttttgtttgt-actaatactccgatccaaaacttttcagTGCAAGCACAATGCAGAGTGTGGAGAGAACATTTCAAATCACAAGGGCAGACAAGGACCTTTTGGCCAAACCAGAGTACGATGTTCAG
     ||  |||  ||  |||  |  |||  ||  |||    |    | |      | || |||  |    |  || |   ||| |||  ||  ||  |||||||    | | || |||||||||||||||||||||||||| | || || || ||||||||| |  |  | |||||||| |  |||||| ||
----gtgcaaataattatctgcattgatgtttaaaaccaaattttcaatgtggctttcttcctgaatgacttaagttaaccatattcctttctgaa-tttttcagAAACAACCCAGTGCAGAGTGTGGAGAGAACATTTCAACTGACTAGAGCTGACAAGGACTTGGTATCAAAACCAGAATTTGATGTTGAG

upper sequence: AT5G60410.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G15880.1 (Glycine max), 3'ss of exon 8
aagaatgacaattgtttcctggctatatgcatagcacc----tgctgaagaaatactgttactggcttttgtttgt-actaatactccgatccaaaacttttcagTGCAAGCACAATGCAGAGTGTGGAGAGAACATTTCAAATCACAAGGGCAGACAAGGACCTTTTGGCCAAACCAGAGTACGATGTTCAG
     ||  |||  ||  |||  |  |||  ||  |||    |    | |      | || |||  |    | ||| |    || |||  |   ||  |||||||    | | || |||||||||||||||||||||||||| | || || || |||| |||| |  |  | |||||||| |  |||||| ||
----gtgcaaataattatctgcattgatgtttaaaaccaaattttcaatgtggctttcttcctgaatggcttatgttaaccgtattcctttttgaa-tttttcagAAACAACCCAGTGCAGAGTGTGGAGAGAACATTTCAACTGACTAGAGCTGACATGGACTTAGTATCAAAACCAGAATTTGATGTTGAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaatactgttactggcttttgtttgtactaatactccgatccaaaacttttcagTGCAAGCACAATGCAGAGTGTGGAGAGAACATTTCAAATCACAAGGGCAGACAAGGACCTTTTGGCCAAACCAGAGTACGATGTTCAG
                          tactaat  putative branch site (score: 1)
                                               cttttc  putative PPT
                                           aaaactttt  TA-rich tract