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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctctgtagtgtgatcatgatgatgcacttcaatttttgcatttgttcatcaagcactaacttggggttgttgttgttgtgtttttttttattttttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACTGTTGTAG

Basic information

species Glycine max
transcript GLYMA16G23160.1
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|9821046|gb|BE556556.1|BE556556
EST:     TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAA                         GCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
genomic: TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAAgtgagtctct ... tttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
EST: gi|209701332|gb|BW655927.1|BW655927
EST:     TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAA                         GCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
genomic: TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAAgtgagtctct ... tttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
EST: gi|58025360|gb|CX712101.1|CX712101
EST:     TTCTGCGTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAA                         GCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
genomic: TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAAgtgagtctct ... tttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
EST: gi|31466577|gb|CD408605.1|CD408605
EST:     TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAA                         GTTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
genomic: TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAAgtgagtctct ... tttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
EST: gi|22928156|gb|BU545295.1|BU545295
EST:     NNCTGCCTATTACGGATAGGAATCCCTATCTNNNTGAGGGTACAAGACAA                         GCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
genomic: TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAAgtgagtctct ... tttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
EST: gi|192306706|gb|FG998860.1|FG998860
EST:     TTCTGCCTATTACGGATAGGAATCCCTATCCCTCTGAGGGTACAAGACAA                         GCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT
genomic: TTCTGCCTATTACGGATAGGAATCCCTATCTCTCTGAGGGTACAAGACAAgtgagtctct ... tttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagcactaacttggggttgttgttgttgtgtttttttttattttttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACTGTTGTAG
     cactaac  putative branch site (score: 1)
                           ttgtgtttttttttat  putative PPT
                  ttgttgttgttgtgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtctctgtagtgtgatcatgatgatgcacttcaatttttgcatttgttcatcaagcactaacttggggttgttgttgttgtgtttttttttattttttttattagGCTATAGCAACCACCTCTGCTTTAGCTAAAAAGTATGGAGCTGACATTACTGTTGTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA