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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actccccgaccccacccaaaaaattaataatatacttcatagtagaaacaaatagttttcaggcaacgattttaaaaggtggaccttgctcatttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGAG

Basic information

species Glycine max
transcript GLYMA12G00830.3
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|31312555|gb|CD397758.1|CD397758
EST:     CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATGTCAGCATCAC                         GTATGATAAATATTATCNAACACCACGAGTATGGCTTACTGGGTATGACGA
genomic: CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
EST: gi|192330860|gb|FK021619.1|FK021619
EST:     CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGG
genomic: CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGG
EST: gi|192330861|gb|FK021620.1|FK021620
EST:     GACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
genomic: GACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
EST: gi|151408115|gb|EV277923.1|EV277923
EST:     CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
genomic: CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
EST: gi|192324977|gb|FK016133.1|FK016133
EST:     CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
genomic: CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
EST: gi|193463512|gb|FK427436.1|FK427436
EST:     TTCGAACTCGGACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
genomic: TTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
EST: gi|19346154|gb|BM891034.1|BM891034
EST:     CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
genomic: CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
EST: gi|151404711|gb|EV274525.1|EV274525
EST:     CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGT
genomic: CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGT
EST: gi|21887729|gb|BQ740942.1|BQ740942
EST:     CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCAC                         GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA
genomic: CCTGATGACGATAATATTCTTCGAACTCGGACTTACGATATCAGCATCACgtaagatgag ... catttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacaaatagttttcaggcaacgattttaaaaggtggaccttgctcatttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGAG
                                      ccttgctc  CT-rich tract
                       attttaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
actccccgaccccacccaaaaaattaataatatacttcatagtagaaacaaatagttttcaggcaacgattttaaaaggtggaccttgctcatttcgcagGTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGACGAG

-ctccccg
- - - - -ccccacc
- - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaggca