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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtgtcattttcttgtaaataagagtttgttacaacctttttcataaaagaatcatttttctttaaaaataatcatttttaaaaaaaatttatg...

Basic information

species Glycine max
transcript GLYMA02G15250.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G15250.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv03s0063g01030.t01 (Vitis vinifera), 5'ss of exon 7
CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtgtcattttcttgtaaataagagtttgttac--aacctttttcataaaagaatcatttttctttaaaaataatcatttttaaaaaaaatttatg
  || ||||||| |||||||||||| |||| |||||||||| ||||  |     |  | | | | ||  | |  ||   || | || |   ||| |  |  ||   |  |  || | || |                   
GGGGGATAAAAAGGGAACTTGCTGCAGCTAAGAAGAAGgtttgtagattgtagctaatctgagtcagtttatagtagtaaatccttatgccaaatgggttgttaaacaattgaactgattacag----------------
















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|15204315|gb|BI427083.1|BI427083
EST:     CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG                         ATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
genomic: CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtg ... tttattgcagATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
EST: gi|207682474|gb|GD664831.1|GD664831
EST:     CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG                         ATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATACAGCAAGATGTTCCAA
genomic: CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtg ... tttattgcagATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
EST: gi|120496303|gb|EH224470.1|EH224470
EST:     CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG                         ATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
genomic: CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtg ... tttattgcagATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
EST: gi|7233363|gb|AW568710.1|AW568710
EST:     CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG                         ATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTC
genomic: CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtg ... tttattgcagATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTC
EST: gi|6073090|gb|AW102477.1|AW102477
EST:     TGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG                         ATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
genomic: TGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtg ... tttattgcagATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
EST: gi|57575694|gb|CX548669.1|CX548669
EST:     CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG                         ATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
genomic: CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtg ... tttattgcagATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
EST: gi|16342328|gb|BI967923.1|BI967923
EST:     CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG                         ATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA
genomic: CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtg ... tttattgcagATAGCTGATAGGCGTGATCTAGAGAAAAAGGCATATAGCAAGATGTTCCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAGgttagtagtgtcattttcttgtaaataagagtttgttacaacctttttcataaaagaatcatttttctttaaaaataatcatttttaaaaaaaatttatg

- - - - -  AAGGAA
- - - - - - - - -  TGCTGC
- - - - - - - - - - GCTGCT
- - - - - - - - - - - TGCTGC
- - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - AAGAAG