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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttacgtcagaattaaatgattaatatagatcattaaaaaaataaatctatgaagatgaaaaattaacaatgggaagttgtcttgttgtaaattttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCGCTGAATACTCAAAGAAGGTGATGGAAAACTGCGTGGCACACATGAAGTC

Basic information

species Glycine max
transcript GLYMA20G38560.2
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|19936282|gb|BQ080797.1|BQ080797
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298175709|gb|HO015228.1|HO015228
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298193229|gb|HO033663.1|HO033663
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|16346692|gb|BI972287.1|BI972287
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298180656|gb|HO022095.1|HO022095
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGGAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298167098|gb|HO010537.1|HO010537
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACGGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298185924|gb|HO031085.1|HO031085
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298184051|gb|HO029264.1|HO029264
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298176125|gb|HO015530.1|HO015530
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298184637|gb|HO029850.1|HO029850
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298168212|gb|HO013475.1|HO013475
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298164595|gb|HO014240.1|HO014240
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298170778|gb|HO015754.1|HO015754
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298184436|gb|HO029649.1|HO029649
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|15000142|gb|BI320956.1|BI320956
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
EST: gi|298173453|gb|HO016789.1|HO016789
EST:     TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAG                         GGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG
genomic: TTCAGAGGAGTTAGTTCACACCCTCCACTTCTACAGGGATATCATTTCAGgtaaacctac ... attttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatgaagatgaaaaattaacaatgggaagttgtcttgttgtaaattttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCGCTGAATACTCAAAGAAGGTGATGGAAAACTGCGTGGCACACATGAAGTC
               aattaac  putative branch site (score: 2)
                                              ttttgtt  putative PPT
         atgaaaaattaacaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttacgtcagaattaaatgattaatatagatcattaaaaaaataaatctatgaagatgaaaaattaacaatgggaagttgtcttgttgtaaattttgttagGGCCGTTTGAAAAGCTAATTAGAGGGTCGAAGATTCTGCCATTGGCTGGCGCTGAATACTCAAAGAAGGTGATGGAAAACTGCGTGGCACACATGAAGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA