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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGTAGATCGACCTGGTGTTAGCTTTTGTTCTAGAACTACTTATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttctttgctctcctatttttcttttattttctctttttatttaggatctttagtgattcacatggtgttagcaactactgcttacaactctcaaggtggcatactgacaattaattgatattccag

Basic information

species Glycine max
transcript GLYMA07G40060.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G40060.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv00s0568g00010.t01 (Vitis vinifera), 5'ss of exon 7
TATGTAGATCGACCTGGTGTTAGCTTTTGTTCTAGAACTACTTATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttctttgctctcctatttttcttttattttctctttttatttaggatctttagtgattcacatggtgttagcaactactgcttacaactctcaaggtggcatactgacaattaattgatattccag
||| ||||||||||||| ||| ||||||||||| |||| |||||||| |||||||| || |||||||| || ||||||||||||  ||| ||||  || || ||   |||  | || |  |  |  |       || || |   |  |  ||    | || ||  | ||  || |  ||   |                                          
TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAGgt--tgtttatta--tcttttgttgtagtggtggtaaagtaattcatatctaaa-tacaggagctgacttga-gcta--aaattttgtccag-----------------------------------------

upper sequence: GLYMA07G40060.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv00s1206g00020.t01 (Vitis vinifera), 5'ss of exon 3
TATGTAGATCGACCTGGTGTTAGCTTTTGTTCTAGAACTACTTATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttctttgctctcctatttttcttttattttctctttttatttaggatctttagtgattcacatggtgttagcaactactgcttacaactctcaaggtggcatactgacaattaattgatattccag
||| ||||||||||||| ||| ||||||||||| |||| |||||||| |||||||| || |||||||| || ||||||||||||  ||| ||||  || || ||  || |  |  |  |  | |        ||  ||| ||     |  ||    | || ||  | ||  || |  ||   |                                          
TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAGgt--tgtttattatctttttttgtagtggtgttaaagtaattcatatctaaa---tacaggagctgacttga-gcta--aaattttgtccag-----------------------------------------
















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|193536718|gb|FK490042.1|FK490042
EST:     TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG                         TGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
genomic: TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttc ... gatattccagTGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
EST: gi|207807077|gb|GD778014.1|GD778014
EST:     TATGACGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG                         TGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
genomic: TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttc ... gatattccagTGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
EST: gi|208246755|gb|GE044367.1|GE044367
EST:     TATGACGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG                         TGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
genomic: TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttc ... gatattccagTGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
EST: gi|58022343|gb|CX709084.1|CX709084
EST:     ATGATGAC-ATGGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG                         TGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
genomic: ATGATGACAAT-GCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttc ... gatattccagTGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
EST: gi|58024987|gb|CX711728.1|CX711728
EST:     TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG                         TGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
genomic: TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttc ... gatattccagTGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
EST: gi|151396369|gb|EV266246.1|EV266246
EST:     TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG                         TGGGGCTGTTCATTTCA
genomic: TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttc ... gatattccagTGGGGCTGTTCATTTCA
EST: gi|58022583|gb|CX709324.1|CX709324
EST:     TATGATCATCCAAGG                         TGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACT
genomic: TATGATCATCCAA-Ggtcttgcttc ... gatattccagTGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACT
EST: gi|57575083|gb|CX548058.1|CX548058
EST:     TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG                         TGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT
genomic: TATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttc ... gatattccagTGGGGCTGTTCATTTCATGGCTTCAAATAATGACTGTGGAGTTAGAGACTT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATGTAGATCGACCTGGTGTTAGCTTTTGTTCTAGAACTACTTATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAGgtcttgcttctttgctctcctatttttcttttattttctctttttatttaggatctttagtgattcacatggtgttagcaactactgcttacaactctcaaggtggcatactgacaattaattgatattccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT