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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGTCGGATGGGATCAGGAAGGTGGTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctgctctgttctctctcattatttcctgtaaattcaacttttatgatgtttcattaataaaactttgaaacatttagcctttgaaatttgcaa...

Basic information

species Glycine max
transcript GLYMA06G10930.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G10930.3 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G107473_T01 (Zea mays), 5'ss of exon 2
CCGTCGGATGGGATCAGGAAGGTGGTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagat------ctgctctg---ttctctctcattatttcctgtaaattcaacttttatg-atgtttcattaataaaactttgaaacatttagcctttgaaatttgcaa-----------------------------
|||||||| |  |||||||||||||| || ||||||||||||||||| || |||| ||| ||| | |  ||  ||| ||||      | ||||       |    || | | || || |        || |   |  || | | |  ||     |   |   |||    |      |||   |                              
CCGTCGGAGGCTATCAGGAAGGTGGTGTTCGGGGGTCAGGTCACCGAGGAGGAGGCCGACAGCCTCACCAAGAGgtcagattccttcccgctccaaatccccgcttcttcacttgctcttggacgtgctctcgcgcgtggtccttcgattcgggtc-aagggattcgttcgcctcgattgatatgacgctcaccctgatgaccgctcctccag

upper sequence: GLYMA06G10930.3 (Glycine max), 5'ss of exon 3
lower sequence: AT1G78150.2 (Arabidopsis thaliana), 5'ss of exon 3
CCGTCGGATGGGATCAGGAAGGTGGTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctgctctgttctctctcattatttcctgta-aattcaacttttatgatgtttcattaataaaact-ttgaaacatttagcctttgaaatttgcaa--
|| ||||||||||| || || ||||| ||||| ||||| |||||||||||||| || |||||||| ||     ||| | |  | ||    ||  | ||| |||||| | |  ||||| | || | |||   ||  ||   ||   | |  | | || |     ||||||  |      
CCATCGGATGGGATTAGCAAAGTGGTGTTTGGTGGTCAAGTCACCGATGAAGAAGTTGAGAGCTTGAACCGCAGgttaaacttact----tccttatcactatttcatttccaattcgatttctttgaaaattagtttccaattttgtccatatatctgaaagttgaaaactttttgt

upper sequence: GLYMA06G10930.3 (Glycine max), 5'ss of exon 3
lower sequence: AT1G78150.3 (Arabidopsis thaliana), 5'ss of exon 2
CCGTCGGATGGGATCAGGAAGGTGGTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctgctctgttctctctcattatttcctgta-aattcaacttttatgatgtttcattaataaaact-ttgaaacatttagcctttgaaa----tttgcaa----------------------------------------------------------------------------
|| ||||||||||| || || ||||| ||||| ||||| |||||||||||||| || |||||||| ||     ||| | |  | ||    ||  | ||| |||||| | |  ||||| | || | |||   ||  ||   ||   | |  | | || |     ||||||    ||||  |                                                                            
CCATCGGATGGGATTAGCAAAGTGGTGTTTGGTGGTCAAGTCACCGATGAAGAAGTTGAGAGCTTGAACCGCAGgttaaacttact----tccttatcactatttcatttccaattcgatttctttgaaaattagtttccaattttgtccatatatctgaaagttgaaaactttttgtgaattgaattcatactctgtttatgccatcaaaagttagatcatagagagtaatcttcaagtgtgacttgtatttaag

upper sequence: GLYMA06G10930.3 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0001g05480.t01 (Vitis vinifera), 5'ss of exon 2
CCGTCGGATGGGATCAGGAAGGTGGTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatct--gctctgttctctctcattatttcctgtaaattcaacttttatgatgtttcattaataaaactttgaaacatttagcctttgaaatttgcaa
|| || ||||||||||| |||||||| ||||| || ||||| || ||||||||||  |||   ||    ||| ||||||||||  | | | |||    |       |  | ||  ||||    | | ||     |||| ||   | |      |  |  ||   |    | | |  
CCTTCCGATGGGATCAGTAAGGTGGTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatctaggttttcttcatattttcgccgttttttaggttcacgactcaggagtcaacattcatggcaataaatgtccgtatgctcctcttttgtcc--

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|208249617|gb|GE048628.1|GE048628
EST:     GATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|193341668|gb|FK305942.1|FK305942
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         -AAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|5605824|gb|AI899922.1|AI899922
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|9204366|gb|BE330590.1|BE330590
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|51345323|gb|CO986056.1|CO986056
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|207777531|gb|GD746624.1|GD746624
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|208149384|gb|GD948116.1|GD948116
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGA
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGA
EST: gi|213593687|gb|DB971709.1|DB971709
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|193673080|gb|FK618942.1|FK618942
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|209722915|gb|BW669461.1|BW669461
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|208156520|gb|GD956830.1|GD956830
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGA
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGA
EST: gi|208175892|gb|GD977245.1|GD977245
EST:     AGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: AGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|298181167|gb|HO022606.1|HO022606
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAA
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAA
EST: gi|298178909|gb|HO024644.1|HO024644
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|193640777|gb|FK587674.1|FK587674
EST:     GATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|192329307|gb|FK020226.1|FK020226
EST:     GTATTTGGGG-TCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|213589447|gb|DB973183.1|DB973183
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|192314071|gb|FK010351.1|FK010351
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|298191866|gb|HO035948.1|HO035948
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|209714511|gb|BW684874.1|BW684874
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
EST: gi|151408216|gb|EV278024.1|EV278024
EST:     GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACG                         AAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT
genomic: GTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctg ... gaatttccagAAAGCCTTGTTCGGATTATAAGATGAAGGAGATAACTGGTAGTGGAATATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCGTCGGATGGGATCAGGAAGGTGGTATTTGGGGGTCAGGTCACCGATGAAGAGGTCGAGAGCTTAAATAAACGgtgagatctgctctgttctctctcattatttcctgtaaattcaacttttatgatgtttcattaataaaactttgaaacatttagcctttgaaatttgcaa

- - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT