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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtggagtttaccaaaaaaatgcatttatgtaaattttactctcaactttgtaacaagaccatttattaattgttctgactgtatgttattcttttaccagCACAAGCAAGAATTTGTAGGTTTATTTGAGAAAATATTGTTGAAGAAGCCTGAATTTGAGCCTCTG

Basic information

species Glycine max
transcript GLYMA04G40090.1
intron # 4
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|209709847|gb|BW668277.1|BW668277
EST:     CAAGCAAGGAGAAACTGCCACATGTCTTGAGATGGATGGATTACATCCAG                         CACAAGCAAGAATTTGTAGGTTTATTTGAGAAAATATTGTTGAAGAAGCCT
genomic: CAAGCAAGGAGAAACTGCCACATGTCTTGAGATGGATGGATTACATCCAGgtaatgctac ... cttttaccagCACAAGCAAGAATTTGTAGGTTTATTTGAGAAAATATTGTTGAAGAAGCCT
EST: gi|18040120|gb|BM308414.1|BM308414
EST:     CAAGCAAGGAGAAACTGCCACATGTCTTGAGATGGATGGATTACATCCAG                         CACAAGCAAGAATTTGTAGGGTTATTT
genomic: CAAGCAAGGAGAAACTGCCACATGTCTTGAGATGGATGGATTACATCCAGgtaatgctac ... cttttaccagCACAAGCAAGAATTTGTAGGTTTATTT
EST: gi|192297198|gb|FG988294.1|FG988294
EST:     CAAGCAAGGAGAAACTGCCACATGTCTTGAGATGGATGGATTACATCCAG                         CACAAGCAAGAATTTGTAGGTTTATTTGAGAAAATATTGTTGAAGAAGCCT
genomic: CAAGCAAGGAGAAACTGCCACATGTCTTGAGATGGATGGATTACATCCAGgtaatgctac ... cttttaccagCACAAGCAAGAATTTGTAGGTTTATTTGAGAAAATATTGTTGAAGAAGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgtaacaagaccatttattaattgttctgactgtatgttattcttttaccagCACAAGCAAGAATTTGTAGGTTTATTTGAGAAAATATTGTTGAAGAAGCCTGAATTTGAGCCTCTG
                           ttctgac  putative branch site (score: 2)
                                        ttattctttt  putative PPT
               atttattaattgttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggagtttaccaaaaaaatgcatttatgtaaattttactctcaactttgtaacaagaccatttattaattgttctgactgtatgttattcttttaccagCACAAGCAAGAATTTGTAGGTTTATTTGAGAAAATATTGTTGAAGAAGCCTGAATTTGAGCCTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
gtggagt
- - - - - - aaaaaaa
- - - - - - - - - -tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccattta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgt