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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcttctgtgtggtgtggccactgttttttttaatgcttaacatattagtaatgtataattggactccaatctctgttattgattcttatttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTCGATCAGTCTTTGTAGGCAAT

Basic information

species Glycine max
transcript GLYMA08G18970.1
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|298176392|gb|HO023093.1|HO023093
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|192331321|gb|FK021018.1|FK021018
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|9986244|gb|BE660352.1|BE660352
EST:     TGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|192293827|gb|FG986036.1|FG986036
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|151400813|gb|EV270627.1|EV270627
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|298164876|gb|HO010873.1|HO010873
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|151395650|gb|EV265527.1|EV265527
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|209716504|gb|BW653892.1|BW653892
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|207773491|gb|GD744531.1|GD744531
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCTGCGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|18039322|gb|BM307616.1|BM307616
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|192295486|gb|FG987100.1|FG987100
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|192310468|gb|FG999183.1|FG999183
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|192310467|gb|FG999182.1|FG999182
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
EST: gi|213593154|gb|DB969896.1|DB969896
EST:     TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAG                         ATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC
genomic: TTTGCGAGAGATGCAGGCCAAGGTCGAGAAGGAAATGGGATCCGTGCAAGgtgactactt ... ttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagtaatgtataattggactccaatctctgttattgattcttatttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTCGATCAGTCTTTGTAGGCAAT
                                tattgat  putative branch site (score: 3)
                                      ttcttatttcc  CT-rich tract
                               ttattgattcttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcttctgtgtggtgtggccactgttttttttaatgcttaacatattagtaatgtataattggactccaatctctgttattgattcttatttccaaatagATCCTGCAAATGCTTCTGCGAGTCAGGCCAATAAAGAGGAAATAGATTCTCGATCAGTCTTTGTAGGCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
-tcttctg
- - - - - tggtgtg
- - - - - - - - -gccactg
- - - - - - - - - - - - - - - ttaatgc