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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catttgaggttaattgttgagtacacaaccattcagttgagttagttacctgaactgtaaactattgaaataattgctcttgtcttccatttgcccccagATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCATTGTCATTCCTCTAATGGCTATTTTGTTGCCTCCAATGTACACACATTCA

Basic information

species Glycine max
transcript GLYMA15G05100.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G05100.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G71190.2 (Arabidopsis thaliana), 3'ss of exon 3
catttgaggttaattgttgagtacacaaccattcagttgagt-tagttacctgaactgtaaactattgaaata-attgctcttgtcttccatt-tgcccccagATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCATTGTCATTCCTCTAATGGCTATTTTGTTGCCTCCAATGTACACACATTCA
               |||    |   || | || |  |   | ||||    | | |  || | | |||| ||| | |   ||    |     | ||     || || || ||||||||  | ||||||||| | || || ||||| || |||||||| |||||  | ||||||||||| |||||||||||||| |||||||| 
---------------gttagtca---aatccttaaactatctctagtggttttagcgatacaatgttgagatagagtaagctgacatgaggctgtgattgtagGTTTTTCGATGACCTTAGGCCATATGCTTTGGTTCAGTTTGTTCCTTGCATTGTGATTCCGTTGATGGCTATTTTATTGCCTCCAATGTATACACATTCC

upper sequence: GLYMA15G05100.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0034g02170.t01 (Vitis vinifera), 3'ss of exon 5
-catttgaggttaattgttgagtacacaaccattcagttgagttagttacctga-actgtaaactattgaaataattgctcttgtcttccatttgcccc--cagATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCATTGTCATTCCTCTAATGGCTATTTTGTTGCCTCCAATGTACACACATTCA
   |||| | |   | |   || ||    |||    |||    ||  |  | |  | ||| || |||   | |  || ||  | | ||  |||| |  |  ||| || ||||||||||| || |||||||| || ||||| ||| | || ||||||| ||||||  ||||||| || ||| |||||||||||||||| ||||| 
tggtttgtgatgtctagaacag-acgtcgccaagaggtttgcataactggcagttattgtgaaatat---attgcttactgatattttttattttcttctgcagGTTTTTTGATGACCTTCGCCCATATGCACTGGTCCAGTTTCTTCCTTGCATTGCCATTCCGTTAATGGCAATATTGCTGCCTCCAATGTACACGCATTCC
















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|193359548|gb|FK324605.1|FK324605
EST:     CGGGTATAATAAGCATTGTGTATTGGAG                         ATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCAT
genomic: CGGGTATAATAAGCATTGTGTATTGGAGgcaagcccac ... ttgcccccagATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCAT
EST: gi|26045603|gb|CA783140.1|CA783140
EST:     TCTATTATACCTCTAGTTTTGGCGGGTATAATAAGCATTGTGTATTGGAG                         ATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCAT
genomic: TCTATTATACCTCTAGTTTTGGCGGGTATAATAAGCATTGTGTATTGGAGgcaagcccac ... ttgcccccagATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCAT
EST: gi|298193280|gb|HO033714.1|HO033714
EST:     TCTATTATACCTCTAGTTTTGGCGGGTATAGTAAGCATTGTGTATTGGAG                         ATTCTTTGATGACCTGCGTCCATATGCT
genomic: TCTATTATACCTCTAGTTTTGGCGGGTATAATAAGCATTGTGTATTGGAGgcaagcccac ... ttgcccccagATTCTTTGATGACCTGCGTCCATATGCT
EST: gi|9898820|gb|BE607788.1|BE607788
EST:     TCTATTATACCTCTAGTTTTGGCGGGTATAATAAGCATTGTGTATTGGAG                         ATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCAT
genomic: TCTATTATACCTCTAGTTTTGGCGGGTATAATAAGCATTGTGTATTGGAGgcaagcccac ... ttgcccccagATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacctgaactgtaaactattgaaataattgctcttgtcttccatttgcccccagATTCTTTGATGACCTGCGTCCATATGCTCTAGTCCAATTTGTGCCATGCATTGTCATTCCTCTAATGGCTATTTTGTTGCCTCCAATGTACACACATTCA
                               ctcttgtcttccattt  CT-rich tract
            taaactattgaaataa  TA-rich tract