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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggacctgattttccatatatgtagacatatcaaatgggtcagggatgatgtatttcttgttcgtactgatggctcaagcattgctttccttttctatgaaagATTCTAAATGAAGGTGAGGGCTGGGAATCTCCCAGAGAACCCTATGAAGTGAAAGCCAG

Basic information

species Arabidopsis thaliana
transcript AT3G54010.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G54010.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G16440.1 (Glycine max), 3'ss of exon 6
gtaggacctgattttccatatatgtagaca-tatcaaatgggtcagggatgatgtatttcttgttcgtactgatggctcaagcattgctttccttttctatgaaagATTCTAAATGAAGGTGAGGGCTGGGAATCTCCCAGAGAACCCTATGAAGTGAAAGCCAG
     |  | |||||   || |  | | || |||||  |  |||||  ||  | ||||   |  ||  | | |           |    ||   | || |    || |   |  ||||||  |||||||||||||||| |||||||| ||||||||||| ||   
---aaatttaattttatttaaaaatggtcactatca--tcagtcagtcattgt-tattcaatagtctcaattacattatgtttctaaagttaactctcaagtgtagGTAGAATGTGAAGGGCAGGGCTGGGAATCTCCAAGAGAACCTTATGAAGTGAAGGCTTT

upper sequence: AT3G54010.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G26350.1 (Glycine max), 3'ss of exon 6
gtaggacctgattttccatatatgtagacatatcaaatgggtcagggatgatgtatttcttgttcgtactgatggctcaagcattgctttccttttctatg-aaagATTCTAAATGAAGGTGAGGGCTGGGAATCTCCCAGAGAACCCTATGAAGTGAAAGCCAG
     |  | |||||   || |  | | ||  |   ||   ||||  ||  | ||||       |    | |    |      |    ||   | |||  |   || |  ||  ||||||  |||||||||||||||| |||||||| ||||||||||| ||  |
----aatttaattttatttaaaaatggtcac-tgtcatcattcagtcattgt-tattcaacagcctctattacattttgtttctgaagttaactctctgagtgtagGTAGTACGTGAAGGGCAGGGCTGGGAATCTCCAAGAGAACCTTATGAAGTGAAGGCTTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtatttcttgttcgtactgatggctcaagcattgctttccttttctatgaaagATTCTAAATGAAGGTGAGGGCTGGGAATCTCCCAGAGAACCCTATGAAGTGAAAGCCAG
                tactgat  putative branch site (score: 2)
                               cattgctttccttttc  putative PPT
                                          ttttctat  TA-rich tract