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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGACAAGCAGCAGGAGAGGTCCCCATCTGTTATTGTCATTGGAGGTGGCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagtttttgttttcccctcttgaacatacatacatacttttgtacttgttaatttatttatttgcataaattgtacttttatttgtcag

Basic information

species Glycine max
transcript GLYMA02G45140.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G45140.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0028g01120.t01 (Vitis vinifera), 5'ss of exon 2
TGATGACAAGCAGCAGGAGAGGTCCCCATCTGTTATTGTCATTGGAGGTGGCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtatt--aaagtttttgttttcccctcttgaacat-acatacatacttttgtacttgttaatttattta---tttgcataaattgtacttttatttgtcag
|  ||| | |||||| | ||  || ||||||||||| ||||| || | ||| ||||| || ||||| |||||||| || ||||| ||||||||||||| ||||||  ||||      |||     |  || | || |  |  ||||     | ||||||| | | | ||   ||  ||| | | |    |  |    | | 
TATTGAAAGGCAGCAAGCGACATCACCATCTGTTATCGTCATAGGTGCTGGTATGGCAGGCATTGCAGCTGCTCGTGCCCTTCATGATGCCTCATTTCGGgtattcaaaagagaaaatttgattatgatgcatatcatttttatacccc-atgcttgttattgtgtctacacttgacatgactagctggtccaacacttat
















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|209725394|gb|BW658269.1|BW658269
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTA
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTA
EST: gi|151411092|gb|EV280903.1|EV280903
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|19052709|gb|BM731376.1|BM731376
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|254324811|gb|GR834236.1|GR834236
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|15814789|gb|BI787064.1|BI787064
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|213595975|gb|DB966278.1|DB966278
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|14259599|gb|BG882507.1|BG882507
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGA
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGA
EST: gi|7686723|gb|AW757371.1|AW757371
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAT                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|209719953|gb|BW666036.1|BW666036
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|21889158|gb|BQ742371.1|BQ742371
EST:     GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
EST: gi|23059794|gb|BU578393.1|BU578393
EST:     GCACTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT
genomic: GCACTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGGGAAAGACCTGGTGGCCGAATTCACACTGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGACAAGCAGCAGGAGAGGTCCCCATCTGTTATTGTCATTGGAGGTGGCATGGCTGGGATTGCTGCTGCTCGGGCACTTCAAGATGCCTCATTTCAGgtattaaagtttttgttttcccctcttgaacatacatacatacttttgtacttgttaatttatttatttgcataaattgtacttttatttgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG