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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtgaaaaataacttactatacaagtagacattcatagttgaattgtgctatcacttttaggagatccctacatcttacgtacatttccctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG

Basic information

species Glycine max
transcript GLYMA20G29750.1
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|208150357|gb|GD950290.1|GD950290
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCGTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCC-TTGGGGGTGAAG
EST: gi|14125433|gb|BG789871.1|BG789871
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|11414051|gb|BF425991.1|BF425991
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|208271410|gb|GE072616.1|GE072616
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAGCT
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAGCT
EST: gi|9564415|gb|BE473924.1|BE473924
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|15285826|gb|BI469717.1|BI469717
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTATTTCTTGTGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|192316887|gb|FK006100.1|FK006100
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|19453458|gb|BM954868.1|BM954868
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|192316886|gb|FK006099.1|FK006099
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|192307911|gb|FK003059.1|FK003059
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|192316699|gb|FK006402.1|FK006402
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|19346752|gb|BM891632.1|BM891632
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|15000115|gb|BI320929.1|BI320929
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|209707846|gb|BW683742.1|BW683742
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|192308823|gb|FK000143.1|FK000143
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|10238334|gb|BE807150.1|BE807150
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGG-TGAAG
EST: gi|17152905|gb|BM142838.1|BM142838
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|193425168|gb|FK389897.1|FK389897
EST:     TAGGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TA-GGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|208079231|gb|GD874943.1|GD874943
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|151397821|gb|EV267694.1|EV267694
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|192316700|gb|FK006403.1|FK006403
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|207773501|gb|GD744541.1|GD744541
EST:     TAGGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TA-GGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|14125470|gb|BG789908.1|BG789908
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|298193346|gb|HO033780.1|HO033780
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|151396174|gb|EV266051.1|EV266051
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|208136682|gb|GD935008.1|GD935008
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
EST: gi|151412364|gb|EV282176.1|EV282176
EST:     TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAAT                         CTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
genomic: TTAGGGGTGGCTTGGCTTGGGATTCTGATAACAAGGCCCTCATCTTCAATgtattttctc ... ctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgctatcacttttaggagatccctacatcttacgtacatttccctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG
                            atcttac  putative branch site (score: 3)
                                      catttcccttt  putative PPT
         actttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgaaaaataacttactatacaagtagacattcatagttgaattgtgctatcacttttaggagatccctacatcttacgtacatttccctttgtacagCTTCATCCAGTTCTTATTGTCATTGGCTTACTAGTCCTTGGGGGTGAAG

- - - aaaataa
- - - - - - - - - - - - - - -acattca
- - - - - - - - - - - - - - - - - - - - - -attgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctaca