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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgcaaattcctacttgttcacaccttctgtgcttatttttcacctacaatttcataatatatgttactcttcgggttcaaatcaccatttttcataacatatctctcttcataatatatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGGAACA

Basic information

species Glycine max
transcript GLYMA19G41540.2
intron # 4
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|209712446|gb|BW671298.1|BW671298
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|8670400|gb|BE191507.1|BE191507
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|209702885|gb|BW655995.1|BW655995
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|105632122|gb|DW246321.1|DW246321
EST:     CGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: CGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|27426223|gb|CA937743.1|CA937743
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|213595578|gb|DB962434.1|DB962434
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|9903043|gb|BE612011.1|BE612011
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|120530586|gb|EH258719.1|EH258719
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|5753286|gb|AI960573.1|AI960573
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|16348529|gb|BI974124.1|BI974124
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|213617672|gb|DB959340.1|DB959340
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|7284172|gb|AW596769.1|AW596769
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|23064426|gb|BU579199.1|BU579199
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|7686625|gb|AW757282.1|AW757282
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|120533740|gb|EH261873.1|EH261873
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|209707067|gb|BW653204.1|BW653204
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|209719660|gb|BW669219.1|BW669219
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|15286291|gb|BI470182.1|BI470182
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|7925259|gb|AW831285.1|AW831285
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|15287371|gb|BI471262.1|BI471262
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|20449765|gb|BQ253889.1|BQ253889
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGNTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|22523298|gb|BU082109.1|BU082109
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|20497984|gb|BQ272914.1|BQ272914
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|17519820|gb|BM188862.1|BM188862
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
EST: gi|120533723|gb|EH261856.1|EH261856
EST:     AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATG                         GACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG
genomic: AAAATCCAGTCTCTCGGCAGAGGGATTTGATGTTGTTTATGACATAAATGgtgtgcaaat ... tatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgggttcaaatcaccatttttcataacatatctctcttcataatatatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGGAACA
                    tcataac  putative branch site (score: 2)
                                             tatttttc  putative PPT
                                  tcttcataatatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgcaaattcctacttgttcacaccttctgtgcttatttttcacctacaatttcataatatatgttactcttcgggttcaaatcaccatttttcataacatatctctcttcataatatatttttcagGACGTGAGGCAGATGAAGTTGAGCCCATACTGGATGCGCTGCCTAATCTGGAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG