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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcaataagctataatcttaaatgtataacttacactactgaatgtctgaagtggaattgtggatgatgatgtataatatgtatgcttttctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCTGAGCATCCCAACAATCCTTGGGGTGTGACACCTTTCAAAAAG

Basic information

species Glycine max
transcript GLYMA11G09370.1
intron # 11
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|9820048|gb|BE555561.1|BE555561
EST:     AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAG                         GTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
genomic: AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAGgtatgcattc ... ctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
EST: gi|208154105|gb|GD954402.1|GD954402
EST:     AAGATTG-TTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAG                         GTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
genomic: AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAGgtatgcattc ... ctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
EST: gi|208190742|gb|GD991390.1|GD991390
EST:     AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTGCTGAGGGAAGAG                         GTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
genomic: AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAGgtatgcattc ... ctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
EST: gi|22523112|gb|BU081923.1|BU081923
EST:     AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAG                         GTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
genomic: AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAGgtatgcattc ... ctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
EST: gi|14259145|gb|BG882053.1|BG882053
EST:     AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAG                         GTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
genomic: AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAGgtatgcattc ... ctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
EST: gi|209718163|gb|BW657809.1|BW657809
EST:     AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAG                         GTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
genomic: AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAGgtatgcattc ... ctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
EST: gi|192294436|gb|FG987365.1|FG987365
EST:     AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAG                         GTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT
genomic: AAGATTGTTTTGAGGTATATGCTTTAGTTCCTGGCCTACTGCGGGAAGAGgtatgcattc ... ctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgaagtggaattgtggatgatgatgtataatatgtatgcttttctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCTGAGCATCCCAACAATCCTTGGGGTGTGACACCTTTCAAAAAG
                                           ttctaaa  putative branch site (score: 2)
                                      tgcttttct  CT-rich tract
                        atgtataatatgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcaataagctataatcttaaatgtataacttacactactgaatgtctgaagtggaattgtggatgatgatgtataatatgtatgcttttctaaaaccagGTCCGTGTACAGTCAGACCCTGCAGGACGCCTAGTCATAAGTGGGGAGCCTGAGCATCCCAACAATCCTTGGGGTGTGACACCTTTCAAAAAG

- - - - - - - - - - - - - - - - - actactg
- - - - - - - - - - - - - - - - - - - - - - - -tgaagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtggatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgta