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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttttacttgcgatgtctcccgatattttttggactttcttttgttaggcttttcgaagtacacttgtctgtttaattttaacgaagttttgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATGACTCTAAGATGAATGAATT

Basic information

species Glycine max
transcript GLYMA15G03020.1
intron # 1
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|254344091|gb|GR851001.1|GR851001
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|213606311|gb|DB961371.1|DB961371
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|193468580|gb|FK432224.1|FK432224
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|298182355|gb|HO026530.1|HO026530
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|151400940|gb|EV270754.1|EV270754
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|9203322|gb|BE329546.1|BE329546
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|192325012|gb|FK015433.1|FK015433
EST:     TTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: TTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|151393771|gb|EV263646.1|EV263646
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
EST: gi|42722562|gb|CK768461.1|CK768461
EST:     AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAG                         TGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG
genomic: AAACCCTAATTCATTCCTCTTTGCTTCTATCTCTATTACCCTAACACCAGgtaacccccc ... tgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggcttttcgaagtacacttgtctgtttaattttaacgaagttttgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATGACTCTAAGATGAATGAATT
                               ttttaac  putative branch site (score: 2)
                                          ttttgttct  putative PPT
                      tctgtttaattttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttttacttgcgatgtctcccgatattttttggactttcttttgttaggcttttcgaagtacacttgtctgtttaattttaacgaagttttgttctgcagTGATGGCAGGTTTGGCTCCAGAAGGATCGCAGTTTGATGCTCGGCAATATGACTCTAAGATGAATGAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - tacttgc
- - - - - - - gtctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtctgtt