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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTAACTGCTCCCATGTCTACCATAAATGCTATAGCTGTTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctctattctctcctgcctctatacttgtcatggcttaatgaaggtattaaatcaaaattttgcttatatataatattaatgggttttttttatc...

Basic information

species Glycine max
transcript GLYMA19G22450.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G22450.2 (Glycine max), 5'ss of exon 5
lower sequence: AT5G14250.1 (Arabidopsis thaliana), 5'ss of exon 5
GTTGTAACTGCTCCCATGTCTACCATAAATGCTATAGCTGTTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctctattctct-------------cctgcctctatactt----gtcatgg---cttaatgaaggtat-taaatcaaaattttgcttatatataatattaatgggttttttttatc-------------------------------------------------------------------------------
||||| |||||||| |||  |    | ||||| |||||| |||| || ||||||||||| |||||||| ||||||||||   |||| |||||||| || | |||| |               ||  | | || ||    |||||||   | || || | |  | | ||||||   | || || |    ||| ||  |       ||  |||                                                                               
GTTGTGACTGCTCCTATGCATCAAGTCAATGCCATAGCTCTTGAGGCGTACAAAAAGTACATATTGGTGTCTCTCATTCACAATGGGCAGgtaaggctgtgttctttatattttactttctttgtttatctagttttcggtcatgggagcatattgcacgagtctgaatcaactgtatgtttttgagaaatgttggtttcacaattacatcctgtgtctgattttaatttcaagcattggttaatcttatgatgtttttcttataatcttgtttgattttacttgtgcag

upper sequence: GLYMA19G22450.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0171g00270.t01 (Vitis vinifera), 5'ss of exon 5
GTTGTAACTGCTCCCATGTCTACCATAAATGCTATAGCTGTTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctctattctctcctgcctctatacttgtcatggcttaatgaaggtattaaatcaaaattttgcttatatataat----attaatgggttttttttatc
||||||||||||||||||||||| ||||||||||||||||||||||| |||||||| || |||||||||||||||||||   ||||||||||  || |   |  | |       |  |  |||  |  ||||   |||  |   | |     |||||  | ||||||  |    ||| |||      || |   
GTTGTAACTGCTCCCATGTCTACTATAAATGCTATAGCTGTTGAAGCCTACAAAAAATACATATTGGTTTCTCTCATTCACAATGGACAGgtttgctttcttctttttagtgtaccttttttgggagagcttg--gaattttacacacattcattttagtaatatattctttttattcatgaaaaaattatg--
















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|208301905|gb|GE099471.1|GE099471
EST:     AAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: AAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|7693028|gb|AW761126.1|AW761126
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|7795192|gb|AW780589.1|AW780589
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         ATCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAGATGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|209728140|gb|BW655375.1|BW655375
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|193725553|gb|FK661947.1|FK661947
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCNGTCTTCCTAAGTATTCTTCTTCG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCG
EST: gi|51336626|gb|CO980492.1|CO980492
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|208237236|gb|GE033844.1|GE033844
EST:     GAAGCTAACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: GAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|193468443|gb|FK429973.1|FK429973
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCG
EST: gi|8285792|gb|BE023351.1|BE023351
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|151404750|gb|EV274564.1|EV274564
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|19453514|gb|BM954924.1|BM954924
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
EST: gi|193522986|gb|FK483041.1|FK483041
EST:     TTGAAGCTTACAAAAAGTNTATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCG
EST: gi|7693232|gb|AW761328.1|AW761328
EST:     TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAG                         TTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG
genomic: TTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctct ... ttggtgccagTTCTCAACCAGTCTTCCTAAGTATTCTTCTTCGACTGCTCAAAGGAACCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGTAACTGCTCCCATGTCTACCATAAATGCTATAGCTGTTGAAGCTTACAAAAAGTATATATTGGTTTCTCTCATTCGTCATGGACAGgtaagcctctattctctcctgcctctatacttgtcatggcttaatgaaggtattaaatcaaaattttgcttatatataatattaatgggttttttttatc

- - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA