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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaggtatttctaaaagctctttgtaagtttctgaattggatacttgagctcgtgattagctttgaatctcagcgattactttgattttgatttgtatactagacttctcaatcgttttgattttgttgttagGCTGAGCAGCAGAAGTACATTGGGATAGTTGAAGATTGTTGTTGTGATTATGAAACTGTGAATCGGCTAAACACGGAAGTGTTGAATCCATTGCTTCAGG

Basic information

species Arabidopsis thaliana
transcript AT2G38960.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G38960.3 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA15G23150.2 (Glycine max), 3'ss of exon 1
gttaggtatttctaaaagctctttgtaagtttctgaattggatacttgagctcgtgattagctttgaatctcagcgattactttgattttgatttgtatactagacttctcaatcgttttgattttgt-tgttagGCTGAGCAGCAGAAGTACATTGGGATAGTTGAAGATTGTTGTTGTGATTATGAAACTGTGAATCGGCTAAACACGGAAGTGTTGAATCCATTGCTTCAGG---
                             ||| |   |||| | ||    || |  |||   |||||   | |     |  ||   ||||||||        |||||     |  |||||  |||||| |||||    |  || | |||||||| ||| || || || ||||||||||||||||||||||||||| |||| || ||    ||||||||| | || |  || ||||   
-----------------------------ttttttttttggctgctgtgactagaaatttagtttga---tgatatgatgtttatgttttgattgagggttgagact-----agagttttcgttttgtctgttacagGGCACACC-GAAGTACAGTGGCATGGTGGAGGATTGTTGTTGTGATTATGAAACTGTGGATCGTCTTAATGAAGAAGTGTTGCACCCTTCCCTCCAGGAGC

upper sequence: AT2G38960.3 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA09G10830.2 (Glycine max), 3'ss of exon 1
gttaggtatttctaaaagctctttgtaagtttctgaattggatacttgagctcgtgattagctttgaatctcagcgattactttgattttgatttgtatactagacttctcaatcgttttgattttgttgttagGCTGAGCAGCAGAAGTACATTGGGATAGTTGAAGATTGTTGTTGTGATTATGAAACTGTGAATCGGCTAAACACGGAAGTGTTGAATCCATTGCTTCAGG---
                   | ||  | | ||| | | ||  ||  ||  |||  ||  |  ||   ||| |       |  |||||||  |  |||  |  |            |||||||  | |||||   |||  | |    |||||||| ||| || || ||||||||||||||||||||||| || ||| |||| || ||    ||||||||| | || |  || ||||   
------------------gttttaatgaattttttatttttatttttt-gctgctgtgtgactagaaatttagtttgatgttttgattgaggcttgagtttt------------cgttttg--tctgttgcagGGCACACC----GAAGTACAGTGGCATGGTGGAAGATTGTTGTTGTGATTATGAGACCGTGGATCGTCTTAATGAAGAAGTGTTGCACCCCTCCCTCCAGGAGC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actttgattttgatttgtatactagacttctcaatcgttttgattttgttgttagGCTGAGCAGCAGAAGTACATTGGGATAGTTGAAGATTGTTGTTGTGATTATGAAACTGTGAATCGGCTAAACACGGAAGTGTTGAATCCATTGCTTCAGG
                                     ttttgat  putative branch site (score: 4)
                                           ttttgtt  CT-rich tract
      attttgatttgtata  TA-rich tract