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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agataaaactctaattctaatcagaaaatgtatctaaagttgtacatacaaaaattctgtctttctgagacttgctaacctttttctctgatgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATGACCCAGAATCGAATAAACCTTTTTATGGACCGAATAACTGGCCCGCACC

Basic information

species Glycine max
transcript GLYMA16G08470.1
intron # 2
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|298183235|gb|HO028220.1|HO028220
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTACATG                         --G-AGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
EST: gi|24135790|gb|BU926300.1|BU926300
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTACATG                         --G-AGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
EST: gi|298181471|gb|HO022910.1|HO022910
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTACATG                         --G-AGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
EST: gi|298166108|gb|HO009079.1|HO009079
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTACATG                         --G-AGACTACAAAGAGGGGTATTATATTGGAGTTGAAAA-GGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
EST: gi|298179589|gb|HO026970.1|HO026970
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTACATG                         TAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
EST: gi|19345789|gb|BM890669.1|BM890669
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATG                         --G-AGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
EST: gi|151412168|gb|EV281980.1|EV281980
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATG                         TAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
EST: gi|254340856|gb|GR854584.1|GR854584
EST:     ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATG                         --G-AGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG
genomic: ATACACCCCTGTTCTTGATGAGTTGCTTGATCCTGAAAACCAAGTGCATGgtatgtacta ... atgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacaaaaattctgtctttctgagacttgctaacctttttctctgatgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATGACCCAGAATCGAATAAACCTTTTTATGGACCGAATAACTGGCCCGCACC
                                 cctttttctctgat  CT-rich tract
     aaaattct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agataaaactctaattctaatcagaaaatgtatctaaagttgtacatacaaaaattctgtctttctgagacttgctaacctttttctctgatgggttaagTAGGAGACTACAAAGAGGGGTATTATATTGGAGTTGAAAAAGGTGAAGATGACCCAGAATCGAATAAACCTTTTTATGGACCGAATAACTGGCCCGCACC

-gataaaac
- - - - - - - - - - - - - - - - - - - - - -acataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgag