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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaggatgcctaacgcgagttggtgttggtctttgcttgggcattattggaataatttgaattttgacagatccttatttacttgtacctcttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCCAAGTCAGCTGCTGGGACT

Basic information

species Glycine max
transcript GLYMA19G37570.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37570.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv08s0007g03910.t01 (Vitis vinifera), 3'ss of exon 11
--aaggatgcctaacgcgagttggtgttggtctttgc-ttggg--cattattggaataatttgaattttgacagatccttatttacttgtacctcttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCCAAGTCAGCTGCTGGGACT
   |  ||  | ||     ||| |  |   | ||  | ||| |  | | |||   | |||||   ||||       ||| |  ||  |||      ||| || ||||| |||||||||| ||||| ||  | ||||||||||||||||| |||||||| || || || ||||| 
aagatcatttccaaaatttgtttgcttaatttttctcattgagttcttcatttaga-aattttccttttagtttggcctga--tatctgtggtg--tccattcagGTTTGTGATTTTGGTCTTTCACGGTTCAAGGCAAATACATTTCTTTCATCCAAATCGGCGGCAGGGACG
















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|208031806|gb|GD829494.1|GD829494
EST:     GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAAT
genomic: GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAAT
EST: gi|298178752|gb|HO024487.1|HO024487
EST:     GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
genomic: GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
EST: gi|193708650|gb|FK644986.1|FK644986
EST:     GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
genomic: GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
EST: gi|207832729|gb|GD803545.1|GD803545
EST:     TCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
genomic: TCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
EST: gi|193428872|gb|FK397586.1|FK397586
EST:     CTCCAAA-CTTC-TGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
genomic: CTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
EST: gi|193720882|gb|FK659046.1|FK659046
EST:     GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
genomic: GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
EST: gi|207780259|gb|GD752628.1|GD752628
EST:     GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGNTTTCCCG-CTAAAGGCAAATACATTTCTCTCATCC
genomic: GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
EST: gi|207770421|gb|GD742833.1|GD742833
EST:     GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAAT-CATTT
genomic: GAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTT
EST: gi|208280179|gb|GE075477.1|GE075477
EST:     TTGACAAGAAATATACAGTGAAG                         GTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC
genomic: TTGACAAGAAATATACAGTGAAGgtaagaatgc ... ttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggaataatttgaattttgacagatccttatttacttgtacctcttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCCAAGTCAGCTGCTGGGACT
               ttttgac  putative branch site (score: 3)
                         tccttatttacttgta  putative PPT
     ataatttgaattttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaggatgcctaacgcgagttggtgttggtctttgcttgggcattattggaataatttgaattttgacagatccttatttacttgtacctcttccctttagGTTGGTGATTTTGGGCTTTCCCGACTAAAGGCAAATACATTTCTCTCATCCAAGTCAGCTGCTGGGACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT