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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgttattattgttttcattttgttactatgatgtggtttttggctcgttttgtttatctatttaatttaatttaatgtcacttttttttttctttcctatgtagGTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG

Basic information

species Glycine max
transcript GLYMA0041S00280.1
intron # 3
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|14125816|gb|BG790254.1|BG790254
EST:     GGAGGTTTGTTTCTCGTTGGCTATGTGTATAGAGGCTCAG                         GTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
genomic: GGAGGTTTGTTTCTCGTTGGCTATGTGTATAGAGGCTCAGgtattttgtt ... tcctatgtagGTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
EST: gi|4397134|gb|AI496131.1|AI496131
EST:     GGAGGTTTGTTTCTCGCTGGCTATGTGTATAGAGGCTCAG                         GTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
genomic: GGAGGTTTGTTTCTCGTTGGCTATGTGTATAGAGGCTCAGgtattttgtt ... tcctatgtagGTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
EST: gi|7684885|gb|AW755533.1|AW755533
EST:     GGAGGTTTGTTTCTCGTTGGCTATGTGTATAGAGGCTCAG                         GTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
genomic: GGAGGTTTGTTTCTCGTTGGCTATGTGTATAGAGGCTCAGgtattttgtt ... tcctatgtagGTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
EST: gi|10237051|gb|BE805939.1|BE805939
EST:     GGAGGTTTGTTTCTCGTTGGCTATGTGTATAGAGGCTCAG                         GTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
genomic: GGAGGTTTGTTTCTCGTTGGCTATGTGTATAGAGGCTCAGgtattttgtt ... tcctatgtagGTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttatctatttaatttaatttaatgtcacttttttttttctttcctatgtagGTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG
                    atttaat  putative branch site (score: 4)
                     tttaatgtcacttttt  CT-rich tract
     tatctatttaatttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttgttattattgttttcattttgttactatgatgtggtttttggctcgttttgtttatctatttaatttaatttaatgtcacttttttttttctttcctatgtagGTGGAATTGGAAACCGTATAGAATCTGTTAGCAGGGTTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG