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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgccagtgaacgactcaattactctgcttccaaatcaaaacctatttcgatctattcgttttttgtagGCCAAAAAGGACGTGGCAAACGTTGAAGATCCCTTTAGTGCCCCTACCTATAACATTCCGGAGAAGCCTGTGACGTTTGTGGAGGGAGCGTCCTACAGTG

Basic information

species Glycine max
transcript GLYMA20G35830.2
intron # 1
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|6071913|gb|AW101300.1|AW101300
EST:     GCTGAAAGCTCCAATAAG                         GCCAAAAAGGACGTGGCAAACGTTGAAGATCCCTTTAGTGCCCCTACCTAT
genomic: GCTGAAAGCTCCAATAAGgtccgccagt ... ttttttgtagGCCAAAAAGGACGTGGCAAACGTTGAAGATCCCTTTAGTGCCCCTACCTAT
EST: gi|19053838|gb|BM732505.1|BM732505
EST:     TTTCTTCCAAAACATCCCAATCCAACGAAGCCGCTGAAAGCTCCAATAAG                         GCCAAAAAGGACGTGGCAAACGTTGAAGATCCCTTTAGTGCCCCTACCTAT
genomic: TTTCTTCCAAAACATCCCAATCCAACGAAGCCGCTGAAAGCTCCAATAAGgtccgccagt ... ttttttgtagGCCAAAAAGGACGTGGCAAACGTTGAAGATCCCTTTAGTGCCCCTACCTAT
EST: gi|4290884|gb|AI441682.1|AI441682
EST:     TTTCTTCCAAAACATCCCAATCCAACGAAGCCGCTGAAAGCTCCAATAAG                         GCCAAAAAGGACGTGGNCAA-CGTTGAAGATCCCTTTAGTGCCCCTACCTA
genomic: TTTCTTCCAAAACATCCCAATCCAACGAAGCCGCTGAAAGCTCCAATAAGgtccgccagt ... ttttttgtagGCCAAAAAGGACGTGG-CAAACGTTGAAGATCCCTTTAGTGCCCCTACCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaattactctgcttccaaatcaaaacctatttcgatctattcgttttttgtagGCCAAAAAGGACGTGGCAAACGTTGAAGATCCCTTTAGTGCCCCTACCTATAACATTCCGGAGAAGCCTGTGACGTTTGTGGAGGGAGCGTCCTACAGTG
                                     tctattcgtttttt  CT-rich tract
                  aaatcaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccgccagtgaacgactcaattactctgcttccaaatcaaaacctatttcgatctattcgttttttgtagGCCAAAAAGGACGTGGCAAACGTTGAAGATCCCTTTAGTGCCCCTACCTATAACATTCCGGAGAAGCCTGTGACGTTTGTGGAGGGAGCGTCCTACAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG