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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctagacttcaattgttgcaaaaaccaatttccatataattttcaggaacattattttcttaatgtaacattttctcgtgttttttacttgcaattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAGAGAACTCCAGTGATGAGGAGCTAACTGAAGATGAATATGATTCTAGTGA

Basic information

species Glycine max
transcript GLYMA07G07540.1
intron # 5
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|254331842|gb|GR846152.1|GR846152
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|6914865|gb|AW396395.1|AW396395
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|58023135|gb|CX709876.1|CX709876
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|31464781|gb|CD406794.1|CD406794
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|10252837|gb|BE820603.1|BE820603
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|14011775|gb|BG726697.1|BG726697
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|15812810|gb|BI785085.1|BI785085
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|18038734|gb|BM307028.1|BM307028
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|15203926|gb|BI426694.1|BI426694
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|23730924|gb|BU763571.1|BU763571
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|151400703|gb|EV270517.1|EV270517
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
EST: gi|213593045|gb|DB983389.1|DB983389
EST:     TGCAGCTTTAATGATGCGGGATCGAGCCACTTAGGAACAAAGGGTTAAAG                         AGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG
genomic: TGCAGCTTTAATGATGCGGGATCGAGCCACTTATGAACAAAGGGTTAAAGgtattgattg ... caattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacattattttcttaatgtaacattttctcgtgttttttacttgcaattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAGAGAACTCCAGTGATGAGGAGCTAACTGAAGATGAATATGATTCTAGTGA
                atgtaac  putative branch site (score: 3)
                                                ttttc  putative PPT
     ttattttcttaatgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctagacttcaattgttgcaaaaaccaatttccatataattttcaggaacattattttcttaatgtaacattttctcgtgttttttacttgcaattttcagAGTACTGTGAGAAGTATGCTAAACCTGAAGATATAGGAGCTGCCACAGAAGAGAACTCCAGTGATGAGGAGCTAACTGAAGATGAATATGATTCTAGTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- -gacttca
- - - - - - tgttgca