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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttaaatacacttgatatccttttacttgcatggcatttgaattgcttggtttcatttatttccaactgggtatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTATTTTAGTTGGCTTAGTTGTGGCTGCTGCAGGGGCATACCTTGTGTACAA

Basic information

species Glycine max
transcript GLYMA20G27000.1
intron # 10
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|151401547|gb|EV271361.1|EV271361
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
EST: gi|193608690|gb|FK562408.1|FK562408
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGACACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCTTGGGCTGCTTTTTGGGTTA
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
EST: gi|6482170|gb|AW201441.1|AW201441
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCANCCCTGGGCTGCTTTTTGGATT
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCC-TGGGCTGCTTTTTGGGTT
EST: gi|31463161|gb|CD405189.1|CD405189
EST:     CACTTGCAGTGGGGATCTTTCGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
EST: gi|193650422|gb|FK595797.1|FK595797
EST:     ACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
genomic: ACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
EST: gi|298171587|gb|HO021179.1|HO021179
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTC
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTC
EST: gi|21601067|gb|BQ611398.1|BQ611398
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
EST: gi|13312023|gb|BG405674.1|BG405674
EST:     CACTT-CAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
EST: gi|193425709|gb|FK391718.1|FK391718
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTT
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTT
EST: gi|15286008|gb|BI469899.1|BI469899
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAG
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAG
EST: gi|192304755|gb|FG994991.1|FG994991
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAG-AGGGAAGATCAGCCTGGGCTGCTTTT-GGGTTA
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA
EST: gi|298197470|gb|HO044949.1|HO044949
EST:     CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAA                         GTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTCTTGGGTTA
genomic: CACTTGCAGTGGGGATCTTTTGTATATAAGGGACCACGATACTTGCATAAgtgagttaaa ... tatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcatggcatttgaattgcttggtttcatttatttccaactgggtatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTATTTTAGTTGGCTTAGTTGTGGCTGCTGCAGGGGCATACCTTGTGTACAA
                        tttcatttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttaaatacacttgatatccttttacttgcatggcatttgaattgcttggtttcatttatttccaactgggtatcctgcagGTAAAACTGCCAGTCAGGAGGGAAGATCAGCCTGGGCTGCTTTTTGGGTTATTTTAGTTGGCTTAGTTGTGGCTGCTGCAGGGGCATACCTTGTGTACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG