Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttatccagggaagctggatgggatgtttatggttgactcagttcctcttgtttatgtgtgtttggtttgctaatgtatgtttttattgtttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGGATGGCGCACATAAAAAG

Basic information

species Glycine max
transcript GLYMA12G09200.1
intron # 2
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|192316065|gb|FK008890.1|FK008890
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|298167178|gb|HO010617.1|HO010617
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCCTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|192332259|gb|FK023908.1|FK023908
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|213603562|gb|DB962708.1|DB962708
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|13252385|gb|BG363288.1|BG363288
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|27424689|gb|CA936209.1|CA936209
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|213602386|gb|DB980449.1|DB980449
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACACATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|298194521|gb|HO042993.1|HO042993
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGAC
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGAC
EST: gi|192316064|gb|FK008889.1|FK008889
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|27425137|gb|CA936657.1|CA936657
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|298165521|gb|HO011570.1|HO011570
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|33388402|gb|CA851609.1|CA851609
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|192332260|gb|FK023909.1|FK023909
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|17401417|gb|BM178199.1|BM178199
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
EST: gi|24205701|gb|BU964954.1|BU964954
EST:     TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAG                         AGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG
genomic: TGATTTCGTTGACTTTGACCTCATTCTTGCTATGGACAAACAGAACAGAGgtaaagtttg ... tttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctcttgtttatgtgtgtttggtttgctaatgtatgtttttattgtttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGGATGGCGCACATAAAAAG
                        tgctaat  putative branch site (score: 2)
                                             tttgcttt  putative PPT
                           taatgtatgtttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttatccagggaagctggatgggatgtttatggttgactcagttcctcttgtttatgtgtgtttggtttgctaatgtatgtttttattgtttgctttagAGGACATATTTGAGGCCTTTAATAGATGGAAAGATAGACATTCTTTACCGGATGGCGCACATAAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA