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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttaaaaatctttgaatcttctggattgtaatgctgtcttcattgtattgtattgtattgactatctatcccttctttttaatggtgttttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGCAGGGGGTTGGTTTCACTCATGGCGTGCTGAACACGGATAACATGAGCAT

Basic information

species Glycine max
transcript GLYMA20G39090.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G39090.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os06g21600.1 (Oryza sativa), 3'ss of exon 5
tttttaaaaatctttgaatcttctggattgtaatgctgtcttcattgtattgtattgtattgactatctatcccttctttttaatggtgttttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGCAGGGGGTTGGTTTCACTCATGGCGTGCTGAACACGGATAACATGAGCAT
    |||| ||| ||  || | ||   || |     | |  ||||||     ||||  |  | |||  ||| |   | |||||||  |   |||   |||| ||||  || ||| |||| ||||| ||||||| | |||| || || ||||| || |||||||| || ||||| ||||| ||||||||||| |||||  |
---gtaaatatcatt--atgtgctattttctttcagtctactcattg----atatttaaaaggctaagtattctccccttttaatccttggtta---cagCCTGGGCAGTTGAGGTTGCAGAGCGCACTGCTTTCTTGATAGCAAGGTGGCAAGGTGTTGGTTTTACCCATGGTGTGCTCAACACGGATAATATGAGTGT

upper sequence: GLYMA20G39090.2 (Glycine max), 3'ss of exon 2
lower sequence: AT5G13030.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------------------tttttaaaaatc------tttgaatcttctggattgtaatgctgtcttcattgtattgtattgtattgac------tatctatcccttctttttaatggtgtt--ttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGCAGGGGGTTGGTTTCACTCATGGCGTGCTGAACACGGATAACATGAGCAT
                                |   | |||  |      ||| | |  | |    | | || || |  | ||||     | ||  ||| |       |||     |   || |||     | ||  |||||| ||||||| | || || |||||||||||||| ||| || |  |||| |||||||| || || |||||||| ||||| ||||| ||||| || || ||||||||
gtaattccctaatgaagtatttgtcaaaatgctgcatgaaacgccactattttcatttgtatcacctattatacttttgttattgccagttgttacattaatggccaatattcgaactaactcttttgcttttttaattatattagCATGGATCGTTGAAATTGCTGAGCGTACAGCTACCTTAGTTGCAAGATGGCAAGGTGTAGGTTTCACCCATGGTGTGCTCAACACTGACAATATGAGCAT

upper sequence: GLYMA20G39090.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0004g01360.t01 (Vitis vinifera), 3'ss of exon 5
tttttaaaaatctttga-atcttctggattgtaatgctgtctt----cattgtattgtattgtattgactatctatcccttctttttaa-tggtgttttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGCAGGGGGTTGGTTTCACTCATGGCGTGCTGAACACGGATAACATGAGCAT
       |||| ||| | ||||     |||  |    ||| ||    | || | || | || | |||  | | | |   ||  ||| || |||||  || | ||||| |||  ||||||| | || || |||||||||||| |  |||| || |||||||||||||||||||| ||||| ||| ||||||| || ||||||||  |
------gaaatatttaatatctgaaacattaaacccttgttttttctctttttgttttttttttttgtttttgtcttttttggtttcaaatggtgaattgtgtcagCTTGGTCGGTGGAGGTGGCAGAACGTACTGCTTCCTTAGTTGCAAGCTGGCAGGGGGTTGGTTTCACCCATGGTGTGTTGAACACTGACAACATGAGTGT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|9258613|gb|BE346760.1|BE346760
EST:     ATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAG                         CATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
genomic: ATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAGgtaaaaataa ... tttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
EST: gi|22523335|gb|BU082146.1|BU082146
EST:     TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAG                         CATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
genomic: TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAGgtaaaaataa ... tttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
EST: gi|10709358|gb|BF009082.1|BF009082
EST:     TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAG                         CATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
genomic: TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAGgtaaaaataa ... tttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
EST: gi|12489826|gb|BG043347.1|BG043347
EST:     TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAG                         CATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
genomic: TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAGgtaaaaataa ... tttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
EST: gi|21677670|gb|BQ630021.1|BQ630021
EST:     TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAG                         CATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC
genomic: TGGTGATGAAGATCATTCTGTTGTAGATCTCACTTCAAATAAGTATGCAGgtaaaaataa ... tttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtattgtattgtattgactatctatcccttctttttaatggtgttttatatcagCATGGGTGGTGGAGATTGCTGAGCGTACTGCTTCCCTGATTGCTAGATGGCAGGGGGTTGGTTTCACTCATGGCGTGCTGAACACGGATAACATGAGCAT
                             ttctttttaat  TA-rich tract