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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCAGTCATCAAGGCAGTAGAGACTGCAACAAAAGAACTAAACTTGACAAGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctagagagagagagagagaggtgacaattgcttttacataagcagatattatttccttataaagtgcccaaaaacattcattcttaaaaattcaa...

Basic information

species Glycine max
transcript GLYMA10G32850.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32850.2 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os12g40550.1 (Oryza sativa), 5'ss of exon 10
AAGCAGTCATCAAGGCAGTAGAGACTGCAACAAAAGAACTAAACTTGACAAGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctagagagagagagagagaggtgacaattgcttttacataagcagatattatttccttataaagtgcccaaaaacattcattcttaaaaattcaa------------------------------------------------------------------
|| |||||||||  ||| | ||   |||  ||||| |  | ||| |   |   ||| |||||||||| ||||| |||||||||||| | || |||||||||| |  ||      |    |    |||     || |   |||| || || |||   |  |  |   ||   |  ||| |  ||  ||  |     |  ||                                                                  
AATCAGTCATCAGCGCAATGGAATTTGCTGCAAAACAGTTGAACCTCGAATATAAGCTGATGATTAGCAGAGCTTATCATGATTCACTCTTCATGGCCAGgtcaagtactataggccccaacagggtt----ttccacctaca-aaccaaataccctggc--tggcaatctctgaaacatgttatttgctttgtgtctaattatgttctttttgtggggtaacatgtttaccaactaacacgtacaactgcttctttgttctgcag

upper sequence: GLYMA10G32850.2 (Glycine max), 5'ss of exon 9
lower sequence: Vv05s0020g04900.t01 (Vitis vinifera), 5'ss of exon 10
AAGCAGTCATCAAGGCAGTAGAGACTGCAACAAAAGAACTAAACTTGACAAGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctagagagagagagagagaggtgac--aattgcttttacataagcagatattatttccttataaagtgcccaaaaacattcattcttaaaaattcaa
|| || | |  |||||| |  |  ||||| |  |||| |||||| |  |   ||||||||||||||| ||||| || ||||||||  |||| ||||||||||||   ||||  ||||       | |      | |||| |        ||  |  | | | | ||    ||   || ||  |||   ||  |   ||  | 
AATCAATAACAAAGGCAATGCAAGCTGCATCTCAAGAGCTAAACCTATCGCACAAGTTGATGATTAGCAGAGCTTACCATGATTCGCTGTTCATGGCCAGgtaagagagaggaagagttcctttgatactttgactgctatgggtcccccaccttctttatgcgtaccttgtaaacagaag-atttggtcccagtgataaa-
















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|193398343|gb|FK363481.1|FK363481
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|13790927|gb|BG653518.1|BG653518
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|213591946|gb|DB977346.1|DB977346
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|21675359|gb|BQ627710.1|BQ627710
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|193692910|gb|FK628491.1|FK628491
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|17963753|gb|BM270498.1|BM270498
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|6133980|gb|AW132430.1|AW132430
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTNTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|22931346|gb|BU548485.1|BU548485
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|23729550|gb|BU762868.1|BU762868
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|209728924|gb|BW654991.1|BW654991
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|13252792|gb|BG363695.1|BG363695
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|10255068|gb|BE822834.1|BE822834
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|19345779|gb|BM890659.1|BM890659
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|298164165|gb|HO013810.1|HO013810
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
EST: gi|192306704|gb|FG998858.1|FG998858
EST:     AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAG                         GTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
genomic: AGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctaga ... ttaattgcagGTTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGCAGTCATCAAGGCAGTAGAGACTGCAACAAAAGAACTAAACTTGACAAGCAAGTTGATGATTAGTAGAGCCTATCATGATTCATTGTTTATGGCCAGgtaatctagagagagagagagagaggtgacaattgcttttacataagcagatattatttccttataaagtgcccaaaaacattcattcttaaaaattcaa

- - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG