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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattataatccctttaaatattatatcacagtatgatcaaatgatgactttgggaaagaaggcaatatttgataggttgttgtttgccttcttttgacagTTATACATGGCACCTATTTCTCACCCTGACAGATACAGTCACAGTATTGATTTTTGGCGCAATGTTTATGGAATTGATA

Basic information

species Arabidopsis thaliana
transcript AT3G20020.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA20G00220.1 (Glycine max), 3'ss of exon 7
gtatgattata--atccctttaaatattatatcacagtatgatcaaatgatgactttgggaaagaaggcaatatttgataggttgttgtttgccttcttttgacagTTATACATGGCACCTATTTCTCACCCTGACAGATACAGTCACAGTATTGATTTTTGGCGCAATGTTTATGGAATTGATA
   || ||| |  ||  ||| |   | | ||||    | | || ||    |||| ||  |         || |       | |  ||| |   ||| | |   ||||| |||||||| ||| |  ||||  | |||||||||||| ||||| |||| || |||||||||||||||||||||||||
tggtggttaaattattacttgattcagtttatc----tttaatgaagatttgaccttttggtgtggtataaaaaaaagctgatccttggtgtacttttctc--cagTTGTACATGGCTCCTGTCACTCATACGGACAGATACAGTGACAGTGTTGACTTCTGGCGCAATGTTTATGGAATTGATA

upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA0048S00320.1 (Glycine max), 3'ss of exon 7
-gtatgatt--ataatccctttaaatattatatcacagtatgatcaaatgatgactttgggaaagaaggcaatatttgataggttgttgtttgccttcttttgacagTTATACATGGCACCTATTTCTCACCCTGACAGATACAGTCACAGTATTGATTTTTGGCGCAATGTTTATGGAATTGATA
   | | ||  |||||  ||  |  || | ||||    | | || |     |||| ||  |         || |  || ||     | || | | ||  |    ||||| |||||||| ||| |  | ||  | |||||||||||| ||||| |||| || ||||||||||||||||||||||| |
ttgagggttcaataattactcgatttagtttatc----tttaataatgatttgaccttttggtgtcttataaaaaatgctaatccttggtgtacttttctc---cagTTGTACATGGCTCCTGTCACACATACGGACAGATACAGTGACAGTGTTGACTTCTGGCGCAATGTTTATGGAATTGACA

upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv10s0071g00750.t01 (Vitis vinifera), 3'ss of exon 7
gtatgattataatccctttaaatattatatca-cagtatgatcaaatgatgactttgggaaagaaggcaatatttgataggttgttgtttgccttcttttgacagTTATACATGGCACCTATTTCTCACCCTGACAGATACAGTCACAGTATTGATTTTTGGCGCAATGTTTATGGAATTGATA
   |    ||| |     |||    |  || |    ||  ||| |    |||  |||| |   ||        | |    | | ||   ||  | ||     ||||| |||||||||||| |  | ||| |||||||||||||  |||| |||||||| ||||||||||| |||||||||||||
---tccaaatagttggaataaggccttaatgagtcatagaatccagcagtga--ttggaactaaatttggccgtggtgctgattttcaatgtttactgcctgcagTTGTACATGGCACCTGTCACACACACTGACAGATACAGAGACAGCATTGATTTCTGGCGCAATGTATATGGAATTGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactttgggaaagaaggcaatatttgataggttgttgtttgccttcttttgacagTTATACATGGCACCTATTTCTCACCCTGACAGATACAGTCACAGTATTGATTTTTGGCGCAATGTTTATGGAATTGATA
                     atttgat  putative branch site (score: 5)
                                  ttgtttgccttctttt  putative PPT
                  aatatttgata  TA-rich tract