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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttattgtctctgttatctttgataattgcttcaggtaatgcatcctctcttctagttttaaatgatagaaaactaaaaatgtttcatgtttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAGATCAGTTGGATACAAGATTGTTGATGAATGGAGGCCTTGGTCATCCAAT

Basic information

species Glycine max
transcript GLYMA16G09320.2
intron # 10
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|151408190|gb|EV277998.1|EV277998
EST:     AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
genomic: AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
EST: gi|254339690|gb|GR857815.1|GR857815
EST:     AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
genomic: AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
EST: gi|13479098|gb|BG508441.1|BG508441
EST:     AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGAACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGAC
genomic: AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGA-CATGTGTGTTCCATACACGGGGAGTCAAGTGTGGAC
EST: gi|192320379|gb|FK013469.1|FK013469
EST:     AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
genomic: AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
EST: gi|5677334|gb|AI938464.1|AI938464
EST:     AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGACATGTGTGT
genomic: AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGACATGTGTGT
EST: gi|57574399|gb|CX547374.1|CX547374
EST:     AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
genomic: AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
EST: gi|208332698|gb|GE126947.1|GE126947
EST:     CTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
genomic: CTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
EST: gi|57574752|gb|CX547727.1|CX547727
EST:     AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAG                         CGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG
genomic: AAGTACCACAAGAACTTAACTTCCAAAGGTTATCGTGCACTTATATTCAGgtgaatttcc ... tttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctctcttctagttttaaatgatagaaaactaaaaatgtttcatgtttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAGATCAGTTGGATACAAGATTGTTGATGAATGGAGGCCTTGGTCATCCAAT
                           aactaaa  putative branch site (score: 2)
                                           tgtttct  putative PPT
            ttttaaatgatagaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcttattgtctctgttatctttgataattgcttcaggtaatgcatcctctcttctagttttaaatgatagaaaactaaaaatgtttcatgtttctggcagCGGCGATCATGACATGTGTGTTCCATACACGGGGAGTCAAGTGTGGACGAGATCAGTTGGATACAAGATTGTTGATGAATGGAGGCCTTGGTCATCCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG