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

...tcaaagttccattatataataattttctatggcctgttttggattatgagtttagtgattttcaattcatttgacttatgaggaggattttccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTCCAACTGGTGTTGAGCTTGCAGCAGAGATTGCTGTTGATTTTCCTGATAA

Basic information

species Glycine max
transcript GLYMA12G09940.1
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|4396359|gb|AI495356.1|AI495356
EST:     AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGT
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGT
EST: gi|213611740|gb|DB958862.1|DB958862
EST:     AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
EST: gi|8284144|gb|BE021703.1|BE021703
EST:     AGAACCAATCCCCAAAACCAGGAGTGAAAGACTTGACCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
EST: gi|254331043|gb|GR842308.1|GR842308
EST:     AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
EST: gi|38193050|gb|CF922256.1|CF922256
EST:     AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
EST: gi|254328690|gb|GR833062.1|GR833062
EST:     AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
EST: gi|254329113|gb|GR833485.1|GR833485
EST:     AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGGAGGT
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGG-AGGT
EST: gi|37996110|gb|CF807699.1|CF807699
EST:     AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGTCCAATACAAAGGAG                         AAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC
genomic: AGAACCTATCCCCAAAACCAGGAGAGAAAGACTTGACCAATACAAAGGAGgtaagacttt ... tccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgagtttagtgattttcaattcatttgacttatgaggaggattttccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTCCAACTGGTGTTGAGCTTGCAGCAGAGATTGCTGTTGATTTTCCTGATAA
                       atttgac  putative branch site (score: 4)
                                          ttttccat  putative PPT
            attttcaattcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaaagttccattatataataattttctatggcctgttttggattatgagtttagtgattttcaattcatttgacttatgaggaggattttccatgacagAAAATGCAAAGATCAAATCTGCAAGTTCAGTTTTGATTGTTGGGGGAGGTCCAACTGGTGTTGAGCTTGCAGCAGAGATTGCTGTTGATTTTCCTGATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - ggcctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaggagg