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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcaagcttttgttctttagttaagaactttgtattatctgattcttctggtggtgataaaattgatcaatatttttttgtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGCACTGCTGGCAACGAGGAGAATCGAAGCCAAGGGAGCCCTTCAACTTTGT

Basic information

species Glycine max
transcript GLYMA08G01040.1
intron # 14
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|22539931|gb|BU089774.1|BU089774
EST:     GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
EST: gi|8670017|gb|BE191124.1|BE191124
EST:     GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
EST: gi|22932879|gb|BU550018.1|BU550018
EST:     TCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGNNTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: TCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
EST: gi|9258493|gb|BE346640.1|BE346640
EST:     GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
EST: gi|9259799|gb|BE347946.1|BE347946
EST:     GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
EST: gi|13480999|gb|BG510342.1|BG510342
EST:     GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
EST: gi|8670012|gb|BE191119.1|BE191119
EST:     GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
EST: gi|58014871|gb|CX701613.1|CX701613
EST:     GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG                         GAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC
genomic: GTTGCCGTCCTATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcaag ... gtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatctgattcttctggtggtgataaaattgatcaatatttttttgtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGCACTGCTGGCAACGAGGAGAATCGAAGCCAAGGGAGCCCTTCAACTTTGT
                          aattgat  putative branch site (score: 4)
                                    tatttttttgtctct  putative PPT
                    tgataaaattgatcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatcaagcttttgttctttagttaagaactttgtattatctgattcttctggtggtgataaaattgatcaatatttttttgtctctgcagGAGCCTTTCCCCATGGGTGCCAATATTAGACTGAGACCCGGAAAATCTCGCACTGCTGGCAACGAGGAGAATCGAAGCCAAGGGAGCCCTTCAACTTTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA