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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGATTTTGGAACATTTGAGGCACTTGGGTTGTGGTGCTGTGCTTGTTAGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaatctcactcaaccatgaatttgttttttgtgttcttttccacccacgttgcatattgttttgctgtttttttttttttttttgtattttctgttgttaataattttatgtgattcttag

Basic information

species Glycine max
transcript GLYMA03G33830.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G33830.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G11880.1 (Arabidopsis thaliana), 5'ss of exon 1
TGAAGATTTTGGAACATTTGAGGCACTTGGGTTGTGGTGCTGTGCTTGTTAGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaatct-cactcaaccatgaatttgttttttgtgttcttttccacccacgttgcatattgttttgctgtttttttttttttttttgtattttctgttgttaataattttatgtgattcttag
| ||||||||||| |||||||||   ||||| |||||||||||| | |||||||| |||||||| ||| | ||||||| |||||| || |||||||| | ||   |   | |   | |||  || || |      |||  |  ||||  |     ||  ||| ||| | ||  ||||||     | | || |   |   ||   | ||||                  
TCAAGATTTTGGAGCATTTGAGGAGTTTGGGCTGTGGTGCTGTGTTGGTTAGTGGAAATGAGCTCAGGCTTGCTCTTCTTGCTGGTTTCGATCCCACAAAgtacgattctttatccccaataataaagt------ttgaatatttttttatttg-gtctcatgttgatgtgtagtttttgaccatgtcttcggtgtggatgaaatgaatag-----------------

upper sequence: GLYMA03G33830.1 (Glycine max), 5'ss of exon 1
lower sequence: AT3G14390.1 (Arabidopsis thaliana), 5'ss of exon 1
TGAAGATTTTGGAACATTTGAGGCACTTGGGTTGTGGTGCTGTGCTTGTTAGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaatctc-actcaaccatgaatttgttttttgtgttcttttccacccacgttgcatat-tgttttgctgtttttttttttttttttgtatt--ttctgttgttaataattttatgtgattcttag-------
| || |||||||| ||||||||    || || |||||||||||||| |||||||| |||||||||||  | |||||||||||||| || |||||||| | |  ||||| |||  | | | |||| | |    | | | || | |      |      | |||   | |      || |||   || ||  | | ||   |  || | | |||  | | || || |    |        
TTAAAATTTTGGAGCATTTGAGAAGTTTAGGCTGTGGTGCTGTGCTCGTTAGTGGAAATGAGCTTAGACTTGCTCTTCGTGCTGGTTTCGATCCCACAAAg--taacattctttatttacccattattgccctgtatctgatttagagagctttaacttcatccctataacaaagtgtttgacttgttgatggaatcagtattgatatgaatggtatgatttggtgtaaaatgaatag

upper sequence: GLYMA03G33830.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ12224 (Selaginella moellendorffii), 5'ss of exon 1
TGAAGATTTTGGAACATTTGAGGCACTTGGGTTGTGGTGCTGTGCTTGTTAGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaatctcactcaaccatgaatttgttttttgtgttcttttccacccacgttgcatattgttttgctgtttttttttttttttttgtattttctgttgttaataattttatgtgattcttag
|||| ||  | || |||||  ||  ||||||  ||||||||||||| || ||||| |||||||||||| | ||  | | |||||||||||||||||| ||||   | | | |              ||| |||| | | ||| || | |  ||   | |     |  |  || ||||||||||||  |  |                                    
TGAAAATCCTCGAGCATTTCCGGAGCTTGGGCAGTGGTGCTGTGCTCGTCAGTGGAAATGAGCTTAGGCTTGCATTGCATGCTGGCTTTGATCCCACCAGgt---aaagttt--------------tttattttcttt-ttccttccaagaca---tactcgaggaataactcttttttttttttcatcag------------------------------------

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|207719745|gb|GD702986.1|GD702986
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
EST: gi|192300739|gb|FG989681.1|FG989681
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
EST: gi|308098900|gb|HO760741.1|HO760741
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
EST: gi|208298643|gb|GE095034.1|GE095034
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
EST: gi|26058756|gb|CA801670.1|CA801670
EST:     AGTGGGAATGAGCTTAAGTTGGCTCTTCGTGCTGACTTTGATCCCACGAA                         GTGTATCTTTAATGGG
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGG
EST: gi|192325345|gb|FK017146.1|FK017146
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
EST: gi|15815294|gb|BI787569.1|BI787569
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGG
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGG
EST: gi|254341593|gb|GR852730.1|GR852730
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
EST: gi|209728051|gb|BW666773.1|BW666773
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
EST: gi|192320763|gb|FK013853.1|FK013853
EST:     AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAG                         GTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC
genomic: AGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaat ... tgattcttagGTGTATCTTTAATGGGAATGGGAAAATCTTGGAGGATTTGGTCTTGGCTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAAGATTTTGGAACATTTGAGGCACTTGGGTTGTGGTGCTGTGCTTGTTAGTGGGAATGAGCTTAGGTTGGCTCTTCGTGCTGGCTTTGATCCCACGAGgtttaacaatctcactcaaccatgaatttgttttttgtgttcttttccacccacgttgcatattgttttgctgtttttttttttttttttgtattttctgttgttaataattttatgtgattcttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT