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

gtaaatcaaacttagaagcaaaagcttagttcataacgtatcaaattggaccatttgcaatcttagttgatccactcattttgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTGAGAATCTGAAATGGCTCCACATTTTCAA

Basic information

species Glycine max
transcript GLYMA07G01660.5
intron # 6
splice site 3'
intron type U2

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|192311639|gb|FK003556.1|FK003556
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaaatcaaa ... tgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
EST: gi|15661860|gb|BI699231.1|BI699231
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAGGGAAGGAGCCTATAAGCACTTGCTGAACGATGAGGATGTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaaatcaaa ... tgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
EST: gi|192315625|gb|FK007453.1|FK007453
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaaatcaaa ... tgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
EST: gi|31457327|gb|CD399355.1|CD399355
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaaatcaaa ... tgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
EST: gi|192295840|gb|FG992636.1|FG992636
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaaatcaaa ... tgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
EST: gi|163921205|gb|EH039507.1|EH039507
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAGGGAAGGAGCCTATAAGCACTTGCTGAACGATGAGGATGTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaaatcaaa ... tgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
EST: gi|192315626|gb|FK007454.1|FK007454
EST:     TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATG                         CATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG
genomic: TACACTGCCCTCTGCGGCTTTGTTCATTATAAGATACCATTCATTCTATGgtaaatcaaa ... tgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtatcaaattggaccatttgcaatcttagttgatccactcattttgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTGAGAATCTGAAATGGCTCCACATTTTCAA
                            agttgat  putative branch site (score: 5)
                                          ttttgtttt  putative PPT
                                         attttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatcaaacttagaagcaaaagcttagttcataacgtatcaaattggaccatttgcaatcttagttgatccactcattttgttttgcagCATTACATAGGGAAGGAGCCTATAAGCACCTGCTGAACGATGAGGATGTTGAGAATCTGAAATGGCTCCACATTTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG