Skip to another splice site:
1  
 5'  3'   
2  
 5'  3'   
3  
 5'  3'   
4  
 5'  3'   
5  
 5'  3'   
6  
 5'  3'   
7  
 5'  3'   
8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAGGAGGGAAAAGATAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttctaagtttgaacccagaaaattcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttttactttctatgcttttag

Basic information

species Glycine max
transcript GLYMA01G09400.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G09400.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G68920.2 (Arabidopsis thaliana), 5'ss of exon 4
GTGAGGAGGGAAAAGATAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttctaagtttgaacccagaaaattcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttttactttctatgcttttag
|| ||||| ||||| || ||||| || |||||||||||||||||||| ||||| || |||| |||||| || | ||| | || ||| ||| ||||| ||| | | | | | || | | | | | | ||| |
GTTAGGAGAGAAAAAATTAGTGAAAGGATGAAGTTTCTTCAAGATCTAGTACCGGGTTGCAACAAGgtaaggtc--actttaagtgttgataatg----atgg-atattaatatgtaagaagagagacaaagctaattcagaaaaatgaatgtgtgtttgcag--------

upper sequence: GLYMA01G09400.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0010g00740.t01 (Vitis vinifera), 5'ss of exon 4
GTGAGGAGGGAAAAGATAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgt-ggcttct--aagtttgaacccagaaaat--tcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttttactttct-atgcttttag
|| || ||||||||||| ||||| || ||||||||||||||||| || |||||||| ||||||||||| || || | | || | | | | | | || | ||| | | || || | | | ||| | |||| || | | | || || |||
GTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAGgttggtttgttggaattaataacttggggaccataattagattgaattatc-tatggaattcgatgttgcttccgtggctcatt-ccatgggaattgcttgatttttgtag
















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|193362293|gb|FK324809.1|FK324809
EST:     TAAGTGAGAGGATGAAGTTTCTTCAAGACCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|208160240|gb|GD953496.1|GD953496
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|193467285|gb|FK433924.1|FK433924
EST:     TAAGTGAGAGGATGAAGTTTCTTCAAGACCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|208231305|gb|GE033494.1|GE033494
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|208027231|gb|GD822633.1|GD822633
EST:     TAAGTGGGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATC
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATC
EST: gi|207712306|gb|GD693770.1|GD693770
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|23734956|gb|BU765737.1|BU765737
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|207711906|gb|GD693720.1|GD693720
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|193490748|gb|FK457749.1|FK457749
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCA
EST: gi|208182235|gb|GD980248.1|GD980248
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAGGAGGGAAAAGATAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttctaagtttgaacccagaaaattcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttttactttctatgcttttag

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