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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACTATGGGTCAATAAATGAAAACGTGAAGAAGAGTCAATATGCTGTCAGAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttataagttattttccaggtcatttacaaaatgttatatttgtttgacttacacgttgcaccctttggttggaggaatacattgatcttgataaa...

Basic information

species Glycine max
transcript GLYMA02G04320.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G04320.2 (Glycine max), 5'ss of exon 2
lower sequence: AT1G23310.1 (Arabidopsis thaliana), 5'ss of exon 2
AGACTATGGGTCAATAAATGAAAACGTGAAGAAGAGTCAATATGCTGTCAGAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggt--tataagttattttccaggtcatttacaaaatgttatatttgtttgacttacacgttgcaccctt-tggttggaggaatacattgatcttgataaa
|||||| |   |  | ||||||||||| |||||| |||| ||||| || ||||||||| | || || ||||||||||| || |||||||| |||||||||||      | |  ||| | |||  |     |  |   |  |  |  ||   | | | | | ||   | |  | ||  |       |  ||  | ||| |    
AGACTACGATACTCTGAATGAAAACGTCAAGAAGTGTCAGTATGCCGTAAGAGGTGAACTTTATCTCCGAGCTTCTGAGCTGCAGAAAGAAGGCAAAAAGgtaaacactttgcgttgtcttcatgtcttgtgcctttacatcttggtttactcaataataggtgttatcaatgtgtctctgactctgtatctaactttaa---

upper sequence: GLYMA02G04320.2 (Glycine max), 5'ss of exon 2
lower sequence: AT1G70580.4 (Arabidopsis thaliana), 5'ss of exon 2
AGACTATGGGTCAATAAATGAAAACGTGAAGAAGAGTCAATATGCTGTCAGAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttataagttattttccaggtcatttacaaaatgttatatttgtttgacttacacgttgcaccctttggttggaggaatacattgatcttgataaa
|||||| | |||  | |||||||||||||||||  |||| ||||| |||||||||||| | || ||||| |||||||| ||||||||||| |||||||||||      |  |||||      |  || |||  |  |    ||  |||| ||  ||   |  ||  | |||||||     | |      ||         
AGACTACGAGTCCTTGAATGAAAACGTGAAGAATTGTCAGTATGCAGTCAGAGGTGAACTTTATCTTCGTGCTTCTGAGCTTCAGAAAGAAGGCAAAAAGgtaacaactttgttatgcgtttg--cagttatgagcttcattagctgtt-gagatatgggaagcgtc-tttggtttcctaactttcacaattacag----
















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|120490920|gb|EH219087.1|EH219087
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|20497810|gb|BQ272740.1|BQ272740
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|11412198|gb|BF424209.1|BF424209
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|209697330|gb|BW655571.1|BW655571
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|27426578|gb|CA938098.1|CA938098
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|209717041|gb|BW654404.1|BW654404
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|213615316|gb|DB963510.1|DB963510
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|209714239|gb|BW665539.1|BW665539
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|209706985|gb|BW683248.1|BW683248
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|209708293|gb|BW683883.1|BW683883
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|213591634|gb|DB968158.1|DB968158
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|213607636|gb|DB958655.1|DB958655
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|15284749|gb|BI468640.1|BI468640
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|19052738|gb|BM731405.1|BM731405
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|15288232|gb|BI472123.1|BI472123
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|11412830|gb|BF424841.1|BF424841
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|20498718|gb|BQ273648.1|BQ273648
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|120495797|gb|EH223964.1|EH223964
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|105633833|gb|DW247196.1|DW247196
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAGCTTCAGAAAGAGGGCAAAAAG                         ATTATATTTACTAATGTTGGCAACCCACATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|6134078|gb|AW132407.1|AW132407
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|213591868|gb|DB973419.1|DB973419
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|12773440|gb|BG238367.1|BG238367
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|209723920|gb|BW675240.1|BW675240
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|120531769|gb|EH259902.1|EH259902
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
EST: gi|213587584|gb|DB969725.1|DB969725
EST:     GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAG                         ATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG
genomic: GAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttata ... ttgttggcagATTATCTTTACTAATGTTGGCAACCCGCATGCATTGGGACAGAAACCACTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACTATGGGTCAATAAATGAAAACGTGAAGAAGAGTCAATATGCTGTCAGAGGTGAATTATACCTTCGAGCTTCTGAACTTCAGAAAGAGGGCAAAAAGgtgggttataagttattttccaggtcatttacaaaatgttatatttgtttgacttacacgttgcaccctttggttggaggaatacattgatcttgataaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG