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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactattttggctagtcacttcacttgcacattctttattgcttaagttaactacctgagaaatacttgaaactaaaatgatatgtaagttttgaccaatatctaaccgaggaatttctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGATTGCCCATGGAATAACTTACTACAGATACTCAACAGTGGTGACTAACAA

Basic information

species Glycine max
transcript GLYMA05G36930.1
intron # 8
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|192296217|gb|FG989758.1|FG989758
EST:     TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCGGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
EST: gi|192298466|gb|FG988467.1|FG988467
EST:     TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
EST: gi|31310366|gb|CD395569.1|CD395569
EST:     CAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: CAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
EST: gi|27426839|gb|CA938359.1|CA938359
EST:     TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCAGGCCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
EST: gi|13789257|gb|BG651848.1|BG651848
EST:     TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCAGGCCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
EST: gi|14991586|gb|BI317259.1|BI317259
EST:     TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCAGGCCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
EST: gi|19054069|gb|BM732736.1|BM732736
EST:     TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
EST: gi|192297433|gb|FG992467.1|FG992467
EST:     TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAG                         CTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA
genomic: TGTTACCAAGCCTCAACCAACCCCCAGTCCCAAGACAACTCCACCTCCAGgtactatttt ... tctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actaaaatgatatgtaagttttgaccaatatctaaccgaggaatttctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGATTGCCCATGGAATAACTTACTACAGATACTCAACAGTGGTGACTAACAA
                             atctaac  putative branch site (score: 2)
                                           tttctctttc  putative PPT
                          aatatctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactattttggctagtcacttcacttgcacattctttattgcttaagttaactacctgagaaatacttgaaactaaaatgatatgtaagttttgaccaatatctaaccgaggaatttctctttcagCTTCGTGGTCAGGTCCAATTTCCATTGAACAGAAAATGACCACCTCGTGGATTGCCCATGGAATAACTTACTACAGATACTCAACAGTGGTGACTAACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA