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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGCTGAGACTGCTTGGAGATTCGTCTGCTTCCTTTGAAAAGAATTGTTTGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttattgacttatttgaaacacatctcaaatgataccaaattaatgttagattcagatccctatgctaatttactttgtgttccacttttatctcaccttgcag

Basic information

species Glycine max
transcript GLYMA02G01930.2
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01930.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 15
TCGCTGAGACTGCTTGGAGATTCGTCTGCTTCCTTTGAAAAGAATTGTTTGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttattg--acttatttgaaacacatctcaaatgataccaaattaatgttagattcagatccctatgctaat--ttactttgtgttccacttttatc-tcaccttgcag
||| | ||| |||| || ||| | |||||||||||||||||||| ||| |||| || |||||||| |||| |||||| |||| |||||||||||| ||||| ||||  ||  | | ||| ||  || |  |  | |  || || |||    | | | | | |||    || | ||  || |||  | ||  ||  ||  | |  ||||||||
TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTGAGGGGAATTCAAGCCAATAAGGAAAGGATTTTAAAATTACTGCACGAGgtaagttgatgcaattcattagagccaaactt--attcttatcatatt---ttgaaacttaaatctgagtgatcatattttcttgctatttgacaattgacattgccttgcag
















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|51343889|gb|CO984622.1|CO984622
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCCA--AA
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|13252662|gb|BG363565.1|BG363565
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCCA--AA
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|51336381|gb|CO980247.1|CO980247
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCCA--AA
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|31561807|gb|CD487645.1|CD487645
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAA-TTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCC----A
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|7640202|gb|AW734508.1|AW734508
EST:     GAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCC----A
genomic: GAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|192307576|gb|FG999615.1|FG999615
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCCA--AA
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|31458946|gb|CD400974.1|CD400974
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCC----A
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|10237782|gb|BE806670.1|BE806670
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCC----A
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|151394627|gb|EV264498.1|EV264498
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCC
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCC
EST: gi|26047345|gb|CA784166.1|CA784166
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCCA--AA
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA
EST: gi|51344356|gb|CO985089.1|CO985089
EST:     TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAG                         TCACTTATGCTTGTCACATCCTTAAACCC----A
genomic: TGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttatt ... caccttgcagTCACTTATGCTTGTCACATCCTTAAACCCAGTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGCTGAGACTGCTTGGAGATTCGTCTGCTTCCTTTGAAAAGAATTGTTTGAGAGGTATTCAAGCTAATAGGGAAAGAATTTCAAAATTACTGCATGAGgtgagttattgacttatttgaaacacatctcaaatgataccaaattaatgttagattcagatccctatgctaatttactttgtgttccacttttatctcaccttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA