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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTATTGGTCTAAATCACTATACGTCAAGGTTTATTTCTCATGTGACAGAATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaataataattggaacattttctcattttctaaaatatcttacacaacgaattctccttgataattgtgttctgtcaacag

Basic information

species Glycine max
transcript GLYMA11G16220.1
intron # 9
splice site 5'
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|254323235|gb|GR840040.1|GR840040
EST:     CGCCGAAGAAAACCATTACTACAA-GTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
genomic: CGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
EST: gi|16343782|gb|BI969377.1|BI969377
EST:     ATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTNNNNNNGCCATAGGTGAGAAN
genomic: ATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
EST: gi|12688294|gb|BG154630.1|BG154630
EST:     TGCGCCCAAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
genomic: TGCGCCGAA-GAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
EST: gi|58019646|gb|CX706388.1|CX706388
EST:     ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTGGCCATGCCATAGGTGAGAAG
genomic: ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
EST: gi|26269516|gb|CA820579.1|CA820579
EST:     ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
genomic: ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
EST: gi|7591313|gb|AW707049.1|AW707049
EST:     ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
genomic: ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
EST: gi|208119495|gb|GD915160.1|GD915160
EST:     ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGG
genomic: ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGG
EST: gi|20448999|gb|BQ253123.1|BQ253123
EST:     ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
genomic: ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG
EST: gi|58022640|gb|CX709381.1|CX709381
EST:     ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTG                         TGGAATGGGAAGGTGGCCATGCCATAGGTGAGAAG
genomic: ATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaata ... ctgtcaacagTGGAATGGGAAGGTGGCCAGGCCATAGGTGAGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTATTGGTCTAAATCACTATACGTCAAGGTTTATTTCTCATGTGACAGAATGCGCCGAAGAAAACCATTACTACAAGGTGCAAGAGATGGAGAGAATTGgtaataaataataattggaacattttctcattttctaaaatatcttacacaacgaattctccttgataattgtgttctgtcaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA