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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtcattcacatgtgtgtattgtcattaatatttctttctaattgcttttgttgtgttctttttgttcttttcgatcttattcatattttctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACTCGGCCGGAACGCCCGCCGCCTCGTCACTCCTTTGAGCCTTCCTTATCAA

Basic information

species Glycine max
transcript GLYMA04G36420.2
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|8403170|gb|BE058804.1|BE058804
EST:     TGAGTACCGTTGAAGAAGCTGAGAACGCC-TGGAGAAATTCAGTCGTTAC                         GATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
genomic: TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTACgtaagtttat ... tctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
EST: gi|23058133|gb|BU578293.1|BU578293
EST:     TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTAC                         GATTTTGATGGAAGATTGTTGACTGTTAATAAAGCTTCTCCAAGAGGAACT
genomic: TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTACgtaagtttat ... tctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
EST: gi|17023176|gb|BM094210.1|BM094210
EST:     TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTAC                         GATTTTGATGGAAGATTGTTGACTGTT
genomic: TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTACgtaagtttat ... tctatgacagGATTTTGATGGAAGATTGTTGACTGTT
EST: gi|18848478|gb|BM567697.1|BM567697
EST:     TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTAC                         GATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
genomic: TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTACgtaagtttat ... tctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
EST: gi|15286229|gb|BI470120.1|BI470120
EST:     TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTAC                         GATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
genomic: TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTACgtaagtttat ... tctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
EST: gi|23728471|gb|BU762290.1|BU762290
EST:     TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTAC                         GATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
genomic: TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTACgtaagtttat ... tctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
EST: gi|298191349|gb|HO038828.1|HO038828
EST:     TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTAC                         GATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT
genomic: TGAGTACCGTTGAAGAAGCTGAGAACGCCGTGGAGAAATTCAGTCGTTACgtaagtttat ... tctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttttgttgtgttctttttgttcttttcgatcttattcatattttctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACTCGGCCGGAACGCCCGCCGCCTCGTCACTCCTTTGAGCCTTCCTTATCAA
                                        tattttct  CT-rich tract
                                 ttattcatattttcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgtcattcacatgtgtgtattgtcattaatatttctttctaattgcttttgttgtgttctttttgttcttttcgatcttattcatattttctatgacagGATTTTGATGGAAGATTGTTGACTGTTAATAAGGCTTCTCCAAGAGGAACTCGGCCGGAACGCCCGCCGCCTCGTCACTCCTTTGAGCCTTCCTTATCAA

- - cattcac
- - - - - - tgtgtgt