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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtttaggattcaactgttttgtagaatcttgcttgaagaactacttggtctttctttcatgtctgttgcttcaattgaggctcatgattcttaaaaaattcttctcttgttacttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG

Basic information

species Glycine max
transcript GLYMA06G14050.2
intron # 7
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|254343884|gb|GR857640.1|GR857640
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|193554375|gb|FK511348.1|FK511348
EST:     CTCAGGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: CTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|6481922|gb|AW201193.1|AW201193
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|21888556|gb|BQ741769.1|BQ741769
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|193301047|gb|FK265554.1|FK265554
EST:     TCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAG
genomic: TCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|192319171|gb|FK009111.1|FK009111
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|9205289|gb|BE331513.1|BE331513
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|193379415|gb|FK344861.1|FK344861
EST:     TATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: TATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|192319172|gb|FK009112.1|FK009112
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|9205272|gb|BE331496.1|BE331496
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|254324021|gb|GR840446.1|GR840446
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|193688938|gb|FK627887.1|FK627887
EST:     TTATTGCAACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTTCTTTGAATCTATTTGCGGAGAG
genomic: TTATTGC-ACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACAC-TTCTTTGAATCTATTTGCGGAGAG
EST: gi|6481926|gb|AW201197.1|AW201197
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|151397590|gb|EV267463.1|EV267463
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|21677144|gb|BQ629495.1|BQ629495
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|8403307|gb|BE058941.1|BE058941
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|15661924|gb|BI699295.1|BI699295
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
EST: gi|254343883|gb|GR857639.1|GR857639
EST:     AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG                         CTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
genomic: AAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAGgtagtttagg ... acttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttcaattgaggctcatgattcttaaaaaattcttctcttgttacttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG
                                ttcttctcttgttact  CT-rich tract
                 atgattcttaaaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtttaggattcaactgttttgtagaatcttgcttgaagaactacttggtctttctttcatgtctgttgcttcaattgaggctcatgattcttaaaaaattcttctcttgttacttctgcagCTTACTCAAGCAGATGTCAAACACTTCTTTGAATCTATTTGCGGAGAG

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