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

gtaaatagtgttaaatgaagatataatatgctctactgtttagctggttgtttgacactgatgatgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGAAGATTGGAAGCTTTGAATCCAACTCGTGCATCAACTAATCTTTATCAT

Basic information

species Glycine max
transcript GLYMA20G29280.1
intron # 5
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|6455809|gb|AW186492.1|AW186492
EST:     GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTG                         GTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
genomic: GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTGgtaaatagtg ... tgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
EST: gi|6727086|gb|AW311440.1|AW311440
EST:     GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTG                         GTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
genomic: GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTGgtaaatagtg ... tgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
EST: gi|213618278|gb|DB973048.1|DB973048
EST:     GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTG                         GTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
genomic: GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTGgtaaatagtg ... tgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
EST: gi|13478740|gb|BG508094.1|BG508094
EST:     GCAAAAGTTATGTGAAGACTTGAGTAATCTG                         GTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
genomic: GCAAAAGTTATGTGAAGACTTGAGTAATCTGgtaaatagtg ... tgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
EST: gi|31470456|gb|CD412484.1|CD412484
EST:     GAGATGAGGAAGCATAAAAGCAAAAGTTATGCGAAGACTTGAGTAATCTG                         GTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
genomic: GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTGgtaaatagtg ... tgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
EST: gi|151398262|gb|EV268140.1|EV268140
EST:     GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTG                         GTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA
genomic: GAGATGAGGAAGCATTAAAGCAAAAGTTATGTGAAGACTTGAGTAATCTGgtaaatagtg ... tgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatataatatgctctactgtttagctggttgtttgacactgatgatgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGAAGATTGGAAGCTTTGAATCCAACTCGTGCATCAACTAATCTTTATCAT
                                    cactgat  putative branch site (score: 3)
                                            atgttataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatagtgttaaatgaagatataatatgctctactgtttagctggttgtttgacactgatgatgttataaagGTTCAAGAGAGCAGTAACTCTCAGTTTGCTCGGCTGGAGGAATTAAAAAGAAGATTGGAAGCTTTGAATCCAACTCGTGCATCAACTAATCTTTATCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG