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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATCACTTCGTTAATACTGGTGCACTTTCTGAGCTCATTCTTGCCTTCTCTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtacttactttttcccagatacgatttatttattaccaatcaacgcggtatgccatgccttaattgacggttcatgtgcctgcag

Basic information

species Glycine max
transcript GLYMA13G00990.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G00990.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv11s0052g00880.t01 (Vitis vinifera), 5'ss of exon 16
GAATCACTTCGTTAATACTGGTGCACTTTCTGAGCTCATTCTTGCCTTCTCTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtac----ttactttttcccagatacg--atttatttattaccaatcaacgcggtatgc-catgccttaat-tgacggttcatgtgcctgcag-----------------------------
||||  ||| ||| |  ||||||| || || ||||| ||| |||| ||||| || || |||||||||||||| |||||||| ||||| ||||||||||||||||     |    |||| ||||   |  ||| || |        |      | |||    ||   |   | | |  || ||| ||  ||                                
GAATGGCTTTGTTGAATCTGGTGCGCTCTCAGAGCTGATTGTTGCTTTCTCACGTGAAGGACCCACCAAGGAATATGTACAGCATAAGATGATGGAGAAGgtacgggactctcatttctcagaagggccattcatctgaagtttttgtttttgatatatatatatatatgtattattgtccatttgtttgagatgctaagtgcatgtttgctttatatctag
















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|209728345|gb|BW659982.1|BW659982
EST:     CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAG                         GCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
genomic: CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
EST: gi|209722908|gb|BW669454.1|BW669454
EST:     ACAACATAAAATGATGGAGAAG                         GCTTCAGNAAA-TTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTG
genomic: ACAACATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAG-AAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTG
EST: gi|254318721|gb|GR828665.1|GR828665
EST:     CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAG                         GCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
genomic: CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
EST: gi|209729002|gb|BW655032.1|BW655032
EST:     CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAG                         GCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
genomic: CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
EST: gi|6914702|gb|AW396232.1|AW396232
EST:     CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAG                         GCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
genomic: CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
EST: gi|209699334|gb|BW664053.1|BW664053
EST:     CATAAAATGATGGAGAAG                         GCTTCAGAAATCTGGAGCCTGATATCTCAAGGAGCTTACATTTATGTGTGT
genomic: CATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
EST: gi|209727361|gb|BW663346.1|BW663346
EST:     CATAAAATGATGGAGAAG                         GCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
genomic: CATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
EST: gi|4313809|gb|AI460928.1|AI460928
EST:     CTCGAGAGGGACCCACCAAGGAGTATGTACC-CATAAAATGATGGAGAAG                         GCTTCAGAAATTTGNAGCATGATATCTCAAGGAGCT
genomic: CTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCT
EST: gi|209710559|gb|BW670983.1|BW670983
EST:     CATAAAATGATGGAGAAG                         GCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT
genomic: CATAAAATGATGGAGAAGgtacttactt ... gtgcctgcagGCTTCAGAAATTTGGAGCATGATATCTCAAGGAGCTTACATTTATGTGTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATCACTTCGTTAATACTGGTGCACTTTCTGAGCTCATTCTTGCCTTCTCTCGAGAGGGACCCACCAAGGAGTATGTACAACATAAAATGATGGAGAAGgtacttactttttcccagatacgatttatttattaccaatcaacgcggtatgccatgccttaattgacggttcatgtgcctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA