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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtttgcactttccatgcattcctctctctatttttcttatttacaagttttatacccgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG

Basic information

species Glycine max
transcript GLYMA10G33470.1
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|18734109|gb|BM527990.1|BM527990
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
EST: gi|10237909|gb|BE806797.1|BE806797
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
EST: gi|298163288|gb|HO012021.1|HO012021
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCCGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
EST: gi|298183905|gb|HO029118.1|HO029118
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
EST: gi|298166632|gb|HO010071.1|HO010071
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
EST: gi|209708035|gb|BW662164.1|BW662164
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
EST: gi|31561669|gb|CD487507.1|CD487507
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
EST: gi|298164725|gb|HO014370.1|HO014370
EST:     CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTG                         GTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
genomic: CATTGCTGAGGTCGAGCGTCAGGGTCTCGAGCGCCTTCAAATCATGCCTGgttcgtttgc ... cgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgcattcctctctctatttttcttatttacaagttttatacccgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG
               tctatttttcttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgtttgcactttccatgcattcctctctctatttttcttatttacaagttttatacccgttgtgcagGTTGTGCTGAGCTTTGTGCGATGCTCGATTCTAAGAAAATAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA