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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttaattcttttcatgcacgaggctgtttggatatatcgtattatcgtccgattctattagtgcatactactaatggttaatcgttatttgttaattactggctctttatgtcttctctcacttaaacctattcagGTTATAGCATTCCTGTACACCGCAATGAGATGTGTTGATTTAGGGTTGAAAACTGCTCTTATTGTGACTCCTGTAAATGTGTTGCACAATTGGCGAAGTG

Basic information

species Arabidopsis thaliana
transcript AT1G08600.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08600.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA20G37100.1 (Glycine max), 3'ss of exon 18
gtgcttaattcttttcatgcacgaggctgtttggatatatcgtattatcgtccgattctattagtgcatactactaatggttaatcgttatttgttaattactggctctttatgtcttctctcacttaaacctattcagGTTATAGCATTCCTGTACACCGCAATGAGATGTGTTGATTTAGGGTTGAAAACTGCTCTTATTGTGACTCCTGTAAATGTGTTGCACAATTGGCGAAGTG
                               || |||  | | |  ||  |  |||    |   |   | ||  |  || |     | | |||| |  ||  |||    | ||| ||  |    ||  |||   || |||| ||||| ||  ||||||| |||||||||||||||||||| ||||| | |||||  ||||| || || ||||| || ||| | || ||||||||    |
-------------------------------tgaataatttgcaacattcttggataggttc--tcttttcttttgctgttctgctgctgtttgatggtt-ttggtc--tgatgactgattatgctggaac---tttagGTGATAGCTTTTTTGTACACTGCAATGAGATGTGTTGATTTGGGGTTAAGAACTGTGCTTATAGTCACACCTGTCAACGTGCTACATAATTGGCGTCAGG

upper sequence: AT1G08600.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv14s0036g01460.t01 (Vitis vinifera), 3'ss of exon 13
gtgcttaattcttttcatgcacgaggctgtttggatatatcgtattatcgtccgattctattagtgcatactactaatggttaatcgttatttgttaattactggctctttatgtcttctctcacttaaacctattcagGTTATAGCATTCCTGTACACCGCAATGAGATGTGTTGATTTAGGGTTGAAAACTGCTCTTATTGTGACTCCTGTAAATGTGTTGCACAATTGGCGAAGTG
                               ||||| |     || || |   |  |||||   || ||| ||||    |||  | |||  ||| |    |  |    |   ||  || ||  | |      ||| ||||| ||||| ||| | || || ||||||||| || |||| ||||| || | |||||| ||||| || || |||||||||||| ||||||||||||||   |
------------------------------gtggattttgatgataattggtagcatctatacctggataatact----gttttttgttggttgatgg--atggagcttgcctgaattgtcaaattc---tgtatgcagGTGATAGCTTTCTTATATACTGCAATGAGAAGTATTGACTTAGGATTAAGAACTGCACTTATCGTTACACCTGTAAATGTGCTGCACAATTGGCGACAGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgttatttgttaattactggctctttatgtcttctctcacttaaacctattcagGTTATAGCATTCCTGTACACCGCAATGAGATGTGTTGATTTAGGGTTGAAAACTGCTCTTATTGTGACTCCTGTAAATGTGTTGCACAATTGGCGAAGTG
                                  ctctcac  putative branch site (score: 3)
                                              cctattc  putative PPT
     atttgttaattact  TA-rich tract