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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgacgtagtgccggagtcctatatattatcgttgtttgtatttttagttcaatttcgcttggaatggatgtatattagaaaaaggaatttttgttgagagatgcttcaaaggatgttttttttactttcaatgcagGGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGAGTTTCTTCATGCAAACACTAAAAGCTTGCTTGATAGCAATCTCCAGGAT

Basic information

species Glycine max
transcript GLYMA04G41540.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G41540.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv16s0098g00290.t01 (Vitis vinifera), 3'ss of exon 20
gtgtgacgtagtgccggagtcctatatattatcgttgtttgtatttt-tagttcaatttcgcttggaatggatgtatattagaaaaaggaatttttgttgagagatgcttcaaaggatgttttttttactttcaatgcagGGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGAGTTTCTTCATGCAAACACTAAAAGCTTGCTTGATAGCAATCTCCAGGAT
                        || |  |  |      | |   | |||  ||   | |  |    |  || ||| |   |  ||| |  || |||||         |||     |||  ||| ||         |||||| || || || || ||||||||| | |||||| | |||||||||||| | ||||| ||||||||||| |||||||||||||| ||||| ||  |||||
-----------------------gtaaaaaactgaaaggggaaagctataggccatgatagtgt---ttaaatctatttgccactaagtagcttgtgttgga------ctcatgaactgtgatttgtat--------cagGGACCTTCCTGTTCCGGGGCGGGAGTTATCAGGAATCCATTTTGCTATGAAATTTCTACATGCAAACACGAAAAGCTTGCTTGACAGCAACCTTGAGGAT
















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|17400585|gb|BM177367.1|BM177367
EST:     CGGGAGGAAAATAATGCTATTGTCTTGGCTGTAGGAGCCACAAAACCAAG                         GGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA
genomic: CGGGAGGAAAATAATGCTATTGTCTTGGCTGTAGGAGCCACAAAACCAAGgtgtgacgta ... ttcaatgcagGGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA
EST: gi|208257979|gb|GE054524.1|GE054524
EST:     TTGTCTTGGCTGTAGGAGCCACAAAACCAAG                         GGATCTTCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA
genomic: TTGTCTTGGCTGTAGGAGCCACAAAACCAAGgtgtgacgta ... ttcaatgcagGGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA
EST: gi|14008715|gb|BG725319.1|BG725319
EST:     CGGGAGGAAAATAATGCTATTGTCTTGGCTGTAGGAGCCACAAAACCAAG                         GGATCTCCCAGTGCCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA
genomic: CGGGAGGAAAATAATGCTATTGTCTTGGCTGTAGGAGCCACAAAACCAAGgtgtgacgta ... ttcaatgcagGGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA
EST: gi|254333029|gb|GR850279.1|GR850279
EST:     CGGGAGGAAAATAATGCTATTGTCTTGGCTGTAGGAGCCACAAAACCAAG                         GGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA
genomic: CGGGAGGAAAATAATGCTATTGTCTTGGCTGTAGGAGCCACAAAACCAAGgtgtgacgta ... ttcaatgcagGGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggaatttttgttgagagatgcttcaaaggatgttttttttactttcaatgcagGGATCTCCCAGTACCTGGGCGGGAGCTGTCAGGAGTTCATTTTGCTATGGAGTTTCTTCATGCAAACACTAAAAGCTTGCTTGATAGCAATCTCCAGGAT
                                tgttttttttactttc  CT-rich tract
                                  ttttttttactttcaa  TA-rich tract