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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

atatccttgtctcgatgttctaactctaactcagcgttttttttaagttctaataactcttttttcgtaatttttattttgcgttgagttctgtgatccttaattattagtttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGCGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGC

Basic information

species Glycine max
transcript GLYMA13G19640.1
intron # 1
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G19640.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 1
atatccttgtctcgatgttctaactctaactcagcgttttttttaagttctaataactcttttttcgtaatttttattttgcgttgagttctgtgatccttaattattagtttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGCGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGC---
             |||||    | | |    |||| | | |       |  | || |  | |    |   | ||| |||||  | || || ||   | |||||   || ||  ||||||| ||||| ||||| ||  | || ||| | || || |||||||||||||| || |||||| || | ||||| || ||||| ||||| ||||||||||   
----------aaggatgtcgccattttt-tgcagcatgtgtcca----ttcagtatccatatagatggtgtgtttcttttgtctcgaatt-tggacttcttaacactttgt--acaagACAAATGTCATGGGAACTTTGAATATGTTGGGTCTGGCGAAGCGAATTGGTGCAAGGTTTTTGTTGACTAGCACAAGTGAAGTTTATGGTGATCCGCTTG

upper sequence: GLYMA13G19640.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G359234_T01 (Zea mays), 3'ss of exon 1
atatccttgtctcgatgttctaactctaactcagcgttttttttaagttctaataactcttttttcgtaatttttattttgcgttgagttctgtgatccttaattattagtttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGCGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGC
        |    |||||    | | |    |||| | | |       |  | || |  | |    |   | ||| |||||  | || || ||   | |||||   || ||  ||||||| ||||| ||||| ||  | || ||| | || || |||||||||||||| || |||||| || | ||||| || ||||| ||||| ||||||||||
-------gggaaggatgtcgccattttt-tgcagcatgtgtcca----ttcagtatccatatagatggtgtgtttcttttgtctcgaatt-tggacttcttaacactttgt--acAAGACAAATGTCATGGGAACTTTGAATATGTTGGGTCTGGCGAAGCGAATTGGTGCAAGGTTTTTGTTGACTAGCACAAGTGAAGTTTATGGTGATCCGC

upper sequence: GLYMA13G19640.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G53520.4 (Arabidopsis thaliana), 3'ss of exon 1
atatccttgtctcgatgttctaactc-taactcagcgttttttttaagttctaataactcttttttcgtaatttttattttgcgttgagttctgtgatccttaattattagtttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGCGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGC
   || |    |   |||  ||  || | |   |  ||||   ||  |    |||   | ||| |   |  ||  |||  ||  |   ||    ||||||||||  ||   |||||||||| ||||| |||||||| || || ||| | || ||||| ||| || ||||||| ||||||||||| || || || ||||| || || || |      
--ctcttacaattattgtgatatttcgtgatgaaatgtttccattggg----aatgtgtttttctctattgttgatatgatgattctggt----tgatccttaaccatagTTTTACAAGACAAATGTAATGGGCACTCTCAATATGTTGGGTCTTGCAAAGAGAGTTGGGGCAAGGTTTCTGCTCACCAGCACAAGTGAAGTCTATGGAG------

upper sequence: GLYMA13G19640.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G53520.1 (Arabidopsis thaliana), 3'ss of exon 1
atatccttgtctcgatgttctaactctaactcagcgttttttttaagttctaataactcttttttcgtaatttttattttgcgttgagttctgtgatccttaattattagtttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGCGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGC
      || |   ||| ||       | |   |  ||||   ||  |    |||   | ||| |   |  ||  |||  ||  |   ||    ||||||||||  ||   |||||||||| ||||| |||||||| || || ||| | || ||||| ||| || ||||||| ||||||||||| || || || ||||| || || || ||||| |
---caattattgtgatatttcg----tgatgaaatgtttccattggg----aatgtgtttttctctattgttgatatgatgattctggt----tgatccttaaccatagttttacAAGACAAATGTAATGGGCACTCTCAATATGTTGGGTCTTGCAAAGAGAGTTGGGGCAAGGTTTCTGCTCACCAGCACAAGTGAAGTCTATGGAGATCCCC

upper sequence: GLYMA13G19640.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0040g02710.t01 (Vitis vinifera), 3'ss of exon 2
atatccttgtctcgatgttctaactctaactcagcgttttttttaagttctaataactcttttttcgtaatttttattttgcgttgagttctgtgatccttaattattagtttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGCGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGC---
                || | || |       |   |    || ||   | ||  |       || || |||||  |      | ||  ||| | |||||| | | |  | ||||||||| |||||||||||||| || |||||| | |||||||| ||| | |||||||| |||||| |||| || ||||| ||||| ||||| ||||| || |   
-------------agggtgccaaatgatgaataatttaggattcaaaaaccaa--atgtaaggttagtgatttt-gtgaaatttggatctcttttatccttgactgt--gattacaagACAAATGTGATGGGCACCCTGAACATGTTGGGCCTTGCAAAGAGGATTGGGGCAAGGTTTTTGCTCACAAGTACAAGTGAAGTTTATGGTGACCCCCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcgtaatttttattttgcgttgagttctgtgatccttaattattagtttacAAGACGAATGTGATGGGCACGCTTAACATGCTTGGCCTTGCGAAGCGAATTGGGGCTAGGTTTCTGCTTACTAGTACTAGTGAGGTTTACGGTGATCCGC
 atccttaat  putative branch site 
                                       ttaattattagttta  TA-rich tract