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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgagtcacttgagacaaaatagttgacattttaaggtaatctcttgtcatatttcagatttatttacacttttatgttccatctttcaatgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCCATCAGTTCAAATGCCGGATTTGAACTTTCTTGATCTGCTTCAGGTG

Basic information

species Glycine max
transcript GLYMA19G37310.4
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37310.4 (Glycine max), 3'ss of exon 15
lower sequence: Vv08s0007g04290.t01 (Vitis vinifera), 3'ss of exon 13
--------------------------------------------------------tttgagtcact---tgagacaaaatagttgacattttaaggtaatctcttgtcatatttcagatttatttacacttttatgttccatctttcaatgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCCATCAGTTCAAATGCCGGATTTGAACTTTCTT---GATCTGCTTCAGGTG
                                                        |   | |||     | |||| | |  ||   | | |       |||| |  | || |    | ||| |||    |||||  ||   | ||| |||| || |||||||| ||||||||||| ||  |||||||||||||||||||||||||||| |||| ||| ||||| || |||||||||||||   |||||   | |  | 
gtacatctccttgtctacttcatcaatttttatagcaaggcacagagcttggaacatccaattcaacctattagaccatactgtaatcttatatctaccatctttacttatgtgcatgttttttttttttttttaacttttttgttttaatggttgcagCTTCCTACATACAAACGCCCTAGCACTTTGAGAGCAAAGCTTCTATATGCAATCAATTCTAATGCAGGGTTTGAACTTTCTTAGGGATCTCGCTTAATTT
















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|37995513|gb|CF807102.1|CF807102
EST:     AAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG                         CTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC
genomic: AAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAGgtaatactaa ... atgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC
EST: gi|19052879|gb|BM731546.1|BM731546
EST:     GTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG                         CTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC
genomic: GTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAGgtaatactaa ... atgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC
EST: gi|151407290|gb|EV277105.1|EV277105
EST:     AAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG                         CTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC
genomic: AAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAGgtaatactaa ... atgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC
EST: gi|207688927|gb|GD672272.1|GD672272
EST:     AAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG                         CTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC
genomic: AAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAGgtaatactaa ... atgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcatatttcagatttatttacacttttatgttccatctttcaatgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCCATCAGTTCAAATGCCGGATTTGAACTTTCTTGATCTGCTTCAGGTG
     atatttcagatttatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgagtcacttgagacaaaatagttgacattttaaggtaatctcttgtcatatttcagatttatttacacttttatgttccatctttcaatgattacagCTTCCAACATACAAACGTCCAGGCACTTTGAGAGCAAAGCTTCTATATGCCATCAGTTCAAATGCCGGATTTGAACTTTCTTGATCTGCTTCAGGTG

- - - -cacttga
- - - - - - - - - - - - - - - - - - - - - - cttgtca