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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatctcatcgaatatttacttgtattgtgctcgtcaacggatcgtcaactgaatgtgtttccctaagatatctgttcctaattgtgtttgtttgtaacagTTTGCATCACTTGTTAAACCATCCATCAGTGTTGACTGTGGGATTCTTCGAGACTGCTATGAATCCTTTGCCATGTACTGTTTTGGTAGATACCTTGTTG

Basic information

species Arabidopsis thaliana
transcript AT4G38360.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38360.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G00300.1 (Glycine max), 3'ss of exon 2
--aatctcatcgaatatttacttgtattgtgctcgtcaacggatcgtcaactgaatgtgtttccctaagatatctgttcctaattgtgtttgtttgtaacagTTTGCATCACTTGTTAAACCATCCATCAGTGTTGACTGTGGGATTCTTCGAGACTGCTATGAATCCTTTGCCATGTACTGTTTTGGTAGATACCTTGTTG
  ||  ||||| |  ||  |||||| || |  || |      ||  |   |  |   | |     ||  || ||  |||  |               | ||||||| |||| | || || ||||| ||||||||||| || | ||||||  | |||||||| ||||||||||||||||| || ||||| |||||||||||||
gtaagttcatc-atcatacacttgtttttttttctttt-tacattatattcatatcatatgatattattatttcaattctgaccccca---accccaaccagTTTGTATCATTGGTCAATCCATCAATCAGTGTTGATTGCGAGATTCTAAGGGACTGCTACGAATCCTTTGCCATGTATTGCTTTGGAAGATACCTTGTTG

upper sequence: AT4G38360.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G00250.1 (Glycine max), 3'ss of exon 2
aatctcatcgaatatttacttgtattgtgctcgtcaacggatcgtcaactgaatgtgtttcc-ctaagatatctgttcctaattgtgtttgtttgtaacagTTTGCATCACTTGTTAAACCATCCATCAGTGTTGACTGTGGGATTCTTCGAGACTGCTATGAATCCTTTGCCATGTACTGTTTTGGTAGATACCTTGTTG
                   |    | ||| ||  ||    ||  |||  |||   | ||||   |   |      |||||  ||            | ||||||| |||| | || || || || ||||||||||| || | ||||||  | |||||||| ||||||||||||||||| || ||||| |||||||||||||
------------------gtaagttcgtgttctacattacat--tcatatgatattatttcaattctaactcactttcctctttcccccaaccccaaccagTTTGTATCATTGGTCAATCCCTCAATCAGTGTTGATTGCGAGATTCTAAGGGACTGCTACGAATCCTTTGCCATGTATTGCTTTGGAAGATACCTTGTTG

upper sequence: AT4G38360.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv03s0038g03670.t01 (Vitis vinifera), 3'ss of exon 3
-aatctcatcgaatatttacttgtattgtgctcgtcaacggatcgtcaactgaatgtgtttccctaa---gatatctgttcctaattgtgtttgtttgtaacagTTTGCATCACTTGTTAAACCATCCATCAGTGTTGACTGTGGGATTCTTCGAGACTGCTATGAATCCTTTGCCATGTACTGTTTTGGTAGATACCTTGTTG
 |||        |  |||| || |||| |  |    ||   ||  |  | |   |   ||||  |||    ||||||   |||||    | || | | ||  ||||||  ||| | || || ||||| ||||||||||| ||||  || || || |||||||||||| ||||||||||||| || || || |||||||||||||
aaattatgggagaattttatttttatttttatttctaa---attctgtattttcttcttttctttaatggaatatctacccctaacatgggttatgtcta-tagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caactgaatgtgtttccctaagatatctgttcctaattgtgtttgtttgtaacagTTTGCATCACTTGTTAAACCATCCATCAGTGTTGACTGTGGGATTCTTCGAGACTGCTATGAATCCTTTGCCATGTACTGTTTTGGTAGATACCTTGTTG
                              tcctaat  putative branch site (score: 2)
                                         tttgttt  putative PPT
                  taagatat  TA-rich tract