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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatccttcagttcctcttccgtaggatctctgttggatgtgaagaatgttgactctaagctctaagttgttagGTTGCATCATCGTGCTGGGAGCGATCCACTTGAATTACATGGCACAGTATATACTGTTATGTGCTTAGAGTGCGGCTTCTCTTTTCCCCGAGACTTGTTT

Basic information

species Arabidopsis thaliana
transcript AT5G09230.7
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G09230.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM5G807054_T01 (Zea mays), 3'ss of exon 19
---gtatatccttcagttcctcttccgtaggatctctgttggatgtgaagaatgttgactctaagctctaagttgttagGTTGCATCATCGTGCTGGGAGCGATCCACTTGAATTACATGGCACAGTATATACTGTTATGTGCTTAGAGTGCGGCTTCTCTTTTCCCCGAGACTTGTTT
   ||        |   |  |  | | |||| |  | |  |  | |     |  || |||    |  |       |||||||||||||||||||||||||  ||||||||||  | ||||| |  ||||||   || || || ||||| || ||    ||  |   |||||| |  || 
gtagtgagctgggcctgtgtttcttcatagg-taacagaagtgtatttttcaccttcacttgttggacatgtaacttagGTTGCATCATCGTGCTGGGAGTAATCCACTTGAGCTGCATGGGAGTGTATATGAGGTAATTTGTTTAGAATGTGGTACATCCATCAGCCGAGAATCATTC

upper sequence: AT5G09230.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G110599_T01 (Zea mays), 3'ss of exon 1
---gtatatccttcagttcctcttccgtaggatctctgttggatgtgaagaatgttgactctaagctctaagttgttagGTTGCATCATCGTGCTGGGAGCGATCCACTTGAATTACATGGCACAGTATATACTGTTATGTGCTTAGAGTGCGGCTTCTCTTTTCCCCGAGACTTGTTT
   ||        |   |  |  | | |||| |  |    |  | |     |  || |||    |  |       |||||||||||||||||||||||||  || || ||||  | ||||| |  ||||||   || || || ||||| || ||    ||  |   |||||| |  || 
gtagtgagctgggcctgtgtttcttcatagg-taacaaaagtgtatttttcaccttcacttgttggacatgtaacttagGTTGCATCATCGTGCTGGGAGTAATTCAATTGAGCTGCATGGGAGTGTATATGAGGTAATTTGTTTAGAATGTGGTACATCCATCAGCCGAGAATCATTC

upper sequence: AT5G09230.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G172260_T01 (Zea mays), 3'ss of exon 4
gtatatccttcagttcctcttccgtag--gatctctgttggatgtgaagaatgttgactctaagctctaagttgttagGTTGCATCATCGTGCTGGGAGCGATCCACTTGAATTACATGGCACAGTATATACTGTTATGTGCTTAGAGTGCGGCTTCTCTTTTCCCCGAGACTTGTTT
   |   ||   |    | || ||||   | |  | |  |  | |     |  || |||    |          |||||||||||||||||||||||||  || |||||||  | ||||| || ||||||   || || || ||||| || |     ||  ||  | |||| | ||| 
---tgagctg-ggcctgtgtttcgtaataggtaacagaagtgtatttttcaccttcacttgttggaaatgtaacttagGTTGCATCATCGTGCTGGGAGTAATTCACTTGAGCTGCATGGGACTGTATATGGGGTAATTTGTTTAGAATGTGTTACATCCATTAGCTGAGAATCGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgtaggatctctgttggatgtgaagaatgttgactctaagctctaagttgttagGTTGCATCATCGTGCTGGGAGCGATCCACTTGAATTACATGGCACAGTATATACTGTTATGTGCTTAGAGTGCGGCTTCTCTTTTCCCCGAGACTTGTTT
                            tgttgac  putative branch site (score: 3)