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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtatcgttcaaaccttttgctatttcactttttaaaattatttattttgtaattgcttattaatgtgacgttttgttaagagattatgcactctttttggttttgcagTTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAG

Basic information

species Glycine max
transcript GLYMA07G28990.1
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|15815680|gb|BI787955.1|BI787955
EST:     TTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG                         TTCGGCGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAG
genomic: TTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGGgtttgtatcg ... ggttttgcagTTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAG
EST: gi|17400364|gb|BM177146.1|BM177146
EST:     TTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG                         TTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAG
genomic: TTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGGgtttgtatcg ... ggttttgcagTTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAG
EST: gi|209712879|gb|BW679156.1|BW679156
EST:     TTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG                         TTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGC-AG
genomic: TTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGGgtttgtatcg ... ggttttgcagTTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttattaatgtgacgttttgttaagagattatgcactctttttggttttgcagTTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAG
    tattaat  putative branch site (score: 2)
                                     ctctttttggtttt  putative PPT
                 ttttgttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtatcgttcaaaccttttgctatttcactttttaaaattatttattttgtaattgcttattaatgtgacgttttgttaagagattatgcactctttttggttttgcagTTCGGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC