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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaatttcttttctgtcaataattatgaatttgttctttttttcccctatcttgtcagaacttattgtctgtgccttgccaaaaatttttggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCAGCCTATCCCTCTTGCT

Basic information

species Glycine max
transcript GLYMA08G22620.5
intron # 3
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|9565669|gb|BE475178.1|BE475178
EST:     AATAAAA-GCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGGATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
genomic: A-TAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|192297880|gb|FG988350.1|FG988350
EST:     AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|37995426|gb|CF807015.1|CF807015
EST:     AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|15199752|gb|BI423992.1|BI423992
EST:     ATAAAAAGCCTGAGANAC-AAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGGCA
genomic: ATAAAAAGCCTGAGA-ACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|192324319|gb|FK018295.1|FK018295
EST:     AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACATGCCATTCCGTCA
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|37994146|gb|CF805892.1|CF805892
EST:     AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|192297127|gb|FG988223.1|FG988223
EST:     AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGGGCAACAAGCCATTCCGTCA
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|151407728|gb|EV277543.1|EV277543
EST:     AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|37995362|gb|CF806951.1|CF806951
EST:     AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCA
EST: gi|193532006|gb|FK488872.1|FK488872
EST:     AATAAAA-GCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAG                         TTGGAATGCAACATATG
genomic: AATAAAAAGCCTGAGAACCAAACACAACAATTACAAGAACCTAAATTGAGgtaacttaca ... ggctttgcagTTGGAATGCAACATATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatcttgtcagaacttattgtctgtgccttgccaaaaatttttggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCAGCCTATCCCTCTTGCT
                                   aaaaattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaatttcttttctgtcaataattatgaatttgttctttttttcccctatcttgtcagaacttattgtctgtgccttgccaaaaatttttggctttgcagTTGGAATGCAACATATGAAAGTTTACTTGGGAGCAACAAGCCATTCCGTCAGCCTATCCCTCTTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA