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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttaatgataatctctgcattttcggtttatattactcagtttggagatgttctaaatgttttgtgttttgctttgacagATAAGCAACTACGCAGGTATACTCTTCATGCTCATGTTCATATCCATAGCAGTAACTGGAATCCTCGAAATGCAATGGGGAGGTGTCGGAATCGATGATT

Basic information

species Arabidopsis thaliana
transcript AT4G39350.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39350.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 13
-----gtaacttaatgataatctctgcattttcggtttatatta--------ctcagtttggagatgttctaaatgttttgtgttttgctttga---cagATAAGCAACTACGCAGGTATACTCTTCATGCTCATGTTCATATCCATAGCAGTAACTGGAATCCTCGAAATGCAATGGGGAGGTGTCGGAATCGATGATT
     |||| || |      |   |     |||   | |||  |        |  ||  | |  | |||   ||  |      || ||  |  |   ||||| |||||||| ||  ||||  | ||||||  | | ||||||||||| |||| |||||| ||||| || ||||||||||| |||||  | || || || |
ttcctgtaattttaaacagttggattttacttcaaataataaaagcgataggcatagacttgttaggttactaacatccaaatttctgtctcaaatgcagATTAGCAACTATGCCAGTATTGTGTTCATGGCCCTCTTCATATCCATTGCAGCAACTGGCATCCTTGAGATGCAATGGGGCGGTGTTAGCATAGACGACT

upper sequence: AT4G39350.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 13
--gtaacttaatgat--aatctctgcatttt---cggtttatattactcagtttggagatgttctaaatgt-----tttgtgttttgctttga----cagATAAGCAACTACGCAGGTATACTCTTCATGCTCATGTTCATATCCATAGCAGTAACTGGAATCCTCGAAATGCAATGGGGAGGTGTCGGAATCGATGATT
  ||  ||| ||  |  ||    || |||||    |      |      ||  | |    |||   ||| |     ||||||| |    |  |    ||||| |||||||| ||  || |  | ||||||  | | ||||||||||| |||| |||||| ||||| || ||||||||||| |||||  | || || || |
gtgtccctttatttttaaacagttggattttacttgaagcgaaaagtatagacttgttgggttactaatatccaaatttgtgtctcaactcaaaatgcagATTAGCAACTATGCCAGTCTTGTGTTCATGGCCCTCTTCATATCCATTGCAGCAACTGGCATCCTTGAGATGCAATGGGGCGGTGTTAGCATAGACGACT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttatattactcagtttggagatgttctaaatgttttgtgttttgctttgacagATAAGCAACTACGCAGGTATACTCTTCATGCTCATGTTCATATCCATAGCAGTAACTGGAATCCTCGAAATGCAATGGGGAGGTGTCGGAATCGATGATT
                         ttctaaa  putative branch site (score: 2)
                                         ttttgcttt  putative PPT
                            taaatgtttt  TA-rich tract