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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttatctttttaatgttttaaatttttaatgtctatcattctctctgttgatatccgtatgatgagttttatgatttgattttgattctcacttgtagAGGTTGAGATGATGAAGGAGAGGTTTGCAAAATTGTTACTTGGAGAAGATATGTCAGGTTGCGGAAATGGGGTCACTACAGCCCTGGCTATTTCAAATGC

Basic information

species Glycine max
transcript GLYMA07G16790.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G16790.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G02010.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------attttatctttttaatgttt--taaatttttaatgtctatcattctctctgttgatatccgtatgatgagttttatgatttgattttgattctcacttgtagAGGTTGAGATGATGAAGGAGAGGTTTGCAAAATTGTTACTTGGAGAAGATATGTCAGGTTGCGGAAATGGGGTCACTACAGCCCTGGCTATTTCAAATGC
                                  |||  | || ||  |   |   || || |||| ||   |   | |   | ||  | || |  |  | |    | |  | ||    || ||      |||||||||||||||||||||||| || ||| | ||| || | ||||||||||||||||||||||  |||||||| |||  ||||||  | ||||| ||||| ||
gttcgtcaatttttatacaaatgcacaccaaatgtttgcttttattcctcactgacaatttattaaagttcgtagctttggatttttctgtctgagt--ttaaggctgttttgtgccactggtttgactatgtagAGGTTGAGATGATGAAGGAAAGATTTTCGAAACTGCTGCTTGGAGAAGATATGTCAGGTTCTGGAAATGGTGTCTGTACAGCTTTAGCTATCTCAAACGC

upper sequence: GLYMA07G16790.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g01390.t01 (Vitis vinifera), 3'ss of exon 1
attttatctttttaatgttttaaatttttaatgtctatcattctctctgttgatatccg-tatga-tgagttttatgatttgattttgattctcactt--gtagAGGTTGAGATGATGAAGGAGAGGTTTGCAAAATTGTTACTTGGAGAAGATATGTCAGGTTGCGGAAATGGGGTCACTACAGCCCTGGCTATTTCAAATGC
 ||   | | |||  |  ||    | |||| | | |  |  |   | | |  ||||    ||||  ||| | ||  |   || || |  ||  |  ||  ||||||||||||||||||||||  || ||| ||| |||| | ||||||||||| ||||||||  | |||| ||||||    |||||  |||||||||| || | 
gttacgtatctttttttcttc---tctttattatgtggcgctga-tatatatatatgtaatatgtctgaatatttggtcgtggttgttgttggcgtttcggtagAGGTTGAGATGATGAAGGCAAGATTTTCAAGATTGCTGCTTGGAGAAGACATGTCAGGGCGTGGAATTGGGGTTTGCACAGCATTGGCTATTTCTAAGGG

upper sequence: GLYMA07G16790.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g01380.t01 (Vitis vinifera), 3'ss of exon 1
attttatctttttaatgttttaaatttttaatgtctatcattctctctgttgatatccgtatgatgagttttatgatttgattttgattctcacttgtagAGGTTGAGATGATGAAGGAGAGGTTTGCAAAATTGTTACTTGGAGAAGATATGTCAGGTTGCGGAAATGGGGTCACTACAGCCCTGGCTATTTCAAATGC
                           |   | |   |  |||||| | || |  | |||   ||  |||| |  |||||||| ||    |     | |||  |||||||||||||||| || ||| | |||||| | ||||||||||| |||||||| || ||||| |||||    ||||| |||||||| || |||||
--------------------------gtatgtcttgtttcttctctttattaaatttcgtgacatatgtttgacaatttgattctggggtttgg--gcagATATTGAGATGATGAAGGAAAGATTTTCGAAATTGCTGCTTGGAGAAGACATGTCAGGGTGTGGAAACGGGGTGTGCACAGCACTGGCTATCTCCAATGC

upper sequence: GLYMA07G16790.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S58_274V6.1 (Physcomitrella patens), 3'ss of exon 2
-attttatctttttaatgttttaaatttttaatgtctatcattctctctgttgatatccgtatgatgagttttatgatttgattttgattctca--cttgtagAGGTTGAGATGATGAAGGAGAGGTTTGCAAAATTGTTACTTGGAGAAGATATGTCAGGTTGCGGAAATGGGGTCACTACAGCCCTGGCTATTTCAAATGC
    |||   ||  | ||  ||  ||  |     | | || |   | | | |  | |   |    | |  | | |    ||||| ||  |      |||| |||||| ||||||||||||||||||||||||||| | || ||||| ||||||||||||||| | || || |||||    |||||  ||||||| || |||||
tgcattactattcgagtgcattttatgat--gcatatgtcgtgtacacggctagtgtg-atgctgtaatatgtgttgcctgattgtgtcttctgttcttgcagAGGTGGAGATGATGAAGGAGAGGTTTGCAAAACTATTGCTTGGTGAAGATATGTCAGGTGGGGGCAAAGGGGTTTGCACAGCGTTGGCTATATCGAATGC

upper sequence: GLYMA07G16790.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S34_404V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------------------------------attttatctttttaatgttttaaatttttaatgt-ctatcattctctctgttgatatccgtatg---atgagttttatgatttgattttgattctcacttgta--gAGGTTGAGATGATGAAGGAGAGGTTTGCAAAATTGTTACTTGGAGAAGATATGTCAGGTTGCGGAAATGGGGTCACTACAGCCCTGGCTATTTCAAATGC
                                                  |||| |     || | |     |   | | |||   |  | |||||   |||   |    ||     | | | | | | |  |||||     | |  ||| ||  || || ||||||||||||||||  ||||||||  |||| || || ||||||||||||||| | || || || ||    |||||  | ||||| || |||||
gtcggtaaacgttatcatcaaaacaaatttctccacaaattcaataagaaatttgactgaatttaagcgc--atcgtatgatgcattggctttctccacgtttggactgatagatgcaagcgctgtgttaactgattgaacctgttgcttctacagAAGTGGAGATGATGAAGGAGAAATTTGCAAAGCTGTTGCTCGGGGAAGATATGTCAGGTGGGGGTAAAGGAGTTTGCACAGCATTAGCTATATCGAATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgttgatatccgtatgatgagttttatgatttgattttgattctcacttgtagAGGTTGAGATGATGAAGGAGAGGTTTGCAAAATTGTTACTTGGAGAAGATATGTCAGGTTGCGGAAATGGGGTCACTACAGCCCTGGCTATTTCAAATGC
                                          ttctcac  putative branch site (score: 2)
                                          ttctcactt  CT-rich tract
                       ttttatgatttgattt  TA-rich tract