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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agattgaactatccggcaagtttttgttggttgttgttttcttactcttcattttgaatttcgttgcaattaatataagaatgcattatatattttatagATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGATTTTACGTCATGGGTTTGTAAAGCTTGTGAAACACCTGACATCAAGCAG

Basic information

species Glycine max
transcript GLYMA19G17460.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 11
-agattgaactatccggcaagtttttgttggttgttgtttt-cttactcttcattttgaatttcgttgcaattaatataagaatgcattatatattttatagATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGATTTTACGTCATGGGTTTGTAAAGCTTGTGAAACACCTGACATCAAGCAG
  | |   | ||| | | ||          |    | | |  |||      ||| ||   | || ||| | || |  |     ||  |  | |  |    |||||||||||||| |||||||| ||||| |||||  | ||||| ||||  || || || |||||||| || ||||| || || |||||||| ||||| |  
ttgctattattattcagaaaaaaaaaacgagaaaatatctgacttgtgaagcatatttggtatcattgaattttaagtcttc-tgt-tccttttctcctcagATGTCAAATAGCAGTTCATCAGGAATGCTATGGGACGAGAAACGTTCGTGACTTCACATCATGGGTCTGCAAAGCCTGCGAGACACCTGAGATCAAACGA

upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 12
agattgaactatccggcaagtttttgttggttgttgttttcttactcttcat-tttgaatttcgttgca--attaatataagaatgcattatatattttata-----gATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGATTTTACGTCATGGGTTTGTAAAGCTTGTGAAACACCTGACATCAAGCAG
  |   ||  ||        |||||||||  ||  | |||     | |   |  |  |||  |  |  |  | | |||| |   |   || | || ||| ||     |||||||||||||||| |||||||| |||||||| |||||||||||||  ||||| || ||||||||||| | ||| ||||||||||||||  |  ||| |
--accaaagaattt------tttttgttgcctggagattttactttttgagtactccaataacactaaatgaattatattacttttttttttttaatttctataccagATGTCAAATAGCCGTCCATCAAGAGTGTTATGGGGCAAGAAATGTTCGGGATTTCACTTCATGGGTTTGCAGAGCATGTGAAACACCTGATGTTGAGCGG
















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|37996740|gb|CF808329.1|CF808329
EST:     TGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAG                         ATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGA
genomic: TGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagt ... tattttatagATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcattttgaatttcgttgcaattaatataagaatgcattatatattttatagATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGATTTTACGTCATGGGTTTGTAAAGCTTGTGAAACACCTGACATCAAGCAG
                      aattaat  putative branch site (score: 3)
                  ttgcaattaatataag  TA-rich tract