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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggatagttttatctttttctccctggtcaactaaaattgttgtgcttgccataattgtagctctatatttaatcattttcttttgccttgtctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGGCAGAGGATGAGAAGGAATCATCTGATGCAGCTGGTCTTATTGAGAAATT

Basic information

species Glycine max
transcript GLYMA10G36500.1
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|254315535|gb|GR825344.1|GR825344
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|58015207|gb|CX701949.1|CX701949
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|10843761|gb|BF067030.1|BF067030
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|7924135|gb|AW830161.1|AW830161
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|16105079|gb|BI892819.1|BI892819
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAA
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAA
EST: gi|254315536|gb|GR825345.1|GR825345
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|254322065|gb|GR837479.1|GR837479
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|26045879|gb|CA783312.1|CA783312
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|9984280|gb|BE658388.1|BE658388
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|58019537|gb|CX706279.1|CX706279
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|9985899|gb|BE659905.1|BE659905
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTC-TTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|18040952|gb|BM309246.1|BM309246
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|7042320|gb|AW472214.1|AW472214
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAA
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAA
EST: gi|192330809|gb|FK021596.1|FK021596
EST:     CTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: CTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|254322064|gb|GR837478.1|GR837478
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|9985900|gb|BE659906.1|BE659906
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|5510355|gb|AI856680.1|AI856680
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|6567189|gb|AW234804.1|AW234804
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTGTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
EST: gi|24205315|gb|BU964568.1|BU964568
EST:     TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAA                         ATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG
genomic: TGGTGAACTCAAGGACGAGCTCTTCTGCATCCGTTTTCCTTCTATTGAAAgtgagttgtg ... tctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgccataattgtagctctatatttaatcattttcttttgccttgtctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGGCAGAGGATGAGAAGGAATCATCTGATGCAGCTGGTCTTATTGAGAAATT
                     atttaat  putative branch site (score: 4)
                           tcattttcttttgcct  CT-rich tract
                tctatatttaatcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggatagttttatctttttctccctggtcaactaaaattgttgtgcttgccataattgtagctctatatttaatcattttcttttgccttgtctcttttagATTGCAAAAGCTTCATGGAAACATTCCAAGAAGTTGCTGAAACACAAAAGGCAGAGGATGAGAAGGAATCATCTGATGCAGCTGGTCTTATTGAGAAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - ttctccc
- - - - - - - - - - - - - - - - - - - - - -gcttgcc