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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGAGCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatatacataatgcatcatgctgaactaaagtttagttttaactttttattttgcattaagctggagtacagacgggtttcttaaacaaatatcat...

Basic information

species Glycine max
transcript GLYMA02G16010.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G16010.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G54660.1 (Arabidopsis thaliana), 5'ss of exon 6
ATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGAGCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatatacataatgcatcatgctgaactaaagtttag----ttttaactttttat------tttgcattaagctggagtacagacgggtttcttaaacaaatatcat--------------------------------------------------------
|||||||  || | || ||| | || ||||||||||||||||||||||| ||||| |  |||||  |||||||  || | |||||||| ||||||||||||||  |||   ||  |   |  || ||    ||  ||| |    ||||     || ||      ||| |  |     |   ||||  | |  |   | | | | || |||                                                        
ATGTTACTGACCGAATCAATTTGACTCCAGTTGCTTTGATGGAGGGAGGTGCATTGGCTAAAACTTTGTTTCAAAATGAGCCAACAAAGCCTGATTATAGgtaacataacaatcttaacttttgatgtttaaacctttgggattttttggtgattgatgagagtttttctctgtttagtcttacatgctgcatcagtgatcta-taacattttataactgttgtctctgatggcttttatcctttctgtgttctataatcaactag

upper sequence: GLYMA02G16010.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv07s0141g00390.t01 (Vitis vinifera), 5'ss of exon 6
ATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGAGCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatatacataatgcatcatgctgaactaaagtttagttttaactttttattttgcattaa-gctggagtacagacgggtttcttaaacaaatatcat
|||| ||| | || |||||| | || |||||||||||||||||||||||||||||||  ||||| || |||  | || | ||||||||||| |||||||||| || |||  ||  ||    |   ||      ||  | |||        | |   | ||   | |||   ||  |||    |||    |     |     
ATGTAACAGATAGAATAAATTTGACTCCAGTTGCTTTGATGGAGGGAGGAGCATTAGCTAAAACTCTATTTGGGAATGAACCAACAAAACCAGATTATAGgtgttctatctattttgtgcaaaattgtttggtagcattgttggcgtggataaggattcagagatgctcctgtctagatacatttaactattgtctgctc-
















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|27424963|gb|CA936483.1|CA936483
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|208088305|gb|GD889473.1|GD889473
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192311298|gb|FK003769.1|FK003769
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|10237572|gb|BE806460.1|BE806460
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|208312884|gb|GE111702.1|GE111702
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192318300|gb|FK005804.1|FK005804
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|19346748|gb|BM891628.1|BM891628
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192314162|gb|FK011534.1|FK011534
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCCGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|37995669|gb|CF807258.1|CF807258
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192311299|gb|FK003770.1|FK003770
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|14258668|gb|BG881576.1|BG881576
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|12773202|gb|BG238129.1|BG238129
EST:     AAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: AAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|16997020|gb|BM086392.1|BM086392
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|7924612|gb|AW830638.1|AW830638
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|8283020|gb|BE020581.1|BE020581
EST:     GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|254323695|gb|GR836034.1|GR836034
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCA
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCA
EST: gi|192318301|gb|FK005805.1|FK005805
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTTACAAACAGGATAAATCTCACCCCAGTTGCTTTGATGGAGGGAGGAGCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatatacataatgcatcatgctgaactaaagtttagttttaactttttattttgcattaagctggagtacagacgggtttcttaaacaaatatcat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT