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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacatgattgcatgtggatttacatttatttctctatccaccttgtatattaggataggatttatgcagttcattatactccgtggttgtattcattccaaatcaattttatgcatgtaacag

Basic information

species Arabidopsis thaliana
transcript AT3G20870.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA12G06060.1 (Glycine max), 5'ss of exon 7
GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacatgattgcatgtggatttacatttatttctctatccaccttgtatattaggataggatttatg-cagttcattatactccgtggttgtattcattccaaatcaattttatgcatgtaacag
|||||||| |||||||||||| | |||||||| ||| |||||||||||| | |      |||   |    ||  |||  |  | |   |   ||| |   ||    |||  | | |    | || ||  ||  |   ||      |                        
GGTGTTGCTGTTGCACTTCCTGTCTATTTTGCGACACAGAGgtaagaacctta------gtgagctcctgttgttttagcctttcgtttgacataatgtcatttttttttggtcggcaagtcattctttgtaataacatctggaact-----------------------

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G03820.2 (Glycine max), 5'ss of exon 8
GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacatgattgcatgtggatttacatttatttctctatccaccttgtatattaggataggatttatgcagttcattatactccgtggttgtattcattccaaatcaattttatgcatgtaacag
|||||||| |||||||||||| |||||||||| ||| | ||||||  || | |  |  |   | ||     |  | | | || |   |||  | || |  |  |  |||    || |  | |  |     || | |||    || |                       
GGTGTTGCTGTTGCACTTCCTGTTTATTTTGCGACACAAAGgtaatgactttaagggctcctg-ttggttctagtatttgtagca--cttagagatgacaaatgacttttaatagctattcaagcgtaaagggtttat--gatcaa-----------------------

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G41580.5 (Glycine max), 5'ss of exon 8
GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacatgattgcatgtggatttacatttatttctctatccaccttgtatattaggataggatttatg-cagttcattatactccgtgg--ttgtattcattccaaatcaattttatgcatgtaacag
|||||||| |||||||||||| |||||||||| ||| | |||||| ||| | |  |  |   | ||     |  | | | || |   |||  | | |   | | || ||||    | |  | |  |     ||  || |  |||                            
GGTGTTGCTGTTGCACTTCCTGTTTATTTTGCGACACAAAGgtaataactttaaggactcctg-ttggttctagtatttgtagct--cttagagaatgacaaatgacttataattgctattcaagcgtaaagggtttatggtca----------------------------

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv06s0004g01860.t01 (Vitis vinifera), 5'ss of exon 8
GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacatgatt---gca-tgtggatttacatttatttctctatccaccttgtatattaggataggatttatgca-------gttcattatactccgtggttgtattcattccaaat----caattttatgcatgtaacag
|||||||| |||||||||||| |||||||||||||| |||||||||||  |  ||   ||| |||   ||||  ||| ||    ||  ||  | |||    |  | |  ||| ||  |        || ||     |       ||  ||   || ||||    |  ||||||  ||    |||
GGTGTTGCTGTTGCACTTCCTGTTTATTTTGCAACACAGAGgtaagaatttctttaaggcactgtaagtttagcttttttaaagtactcaagtagtaaggaaaaaaaaaattgattgattgatttatttatggctttttaaaactgatttatctctaaatggttcctttttatatattcctcag

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|86083065|gb|DR378824.1|DR378824
EST:     GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG                         CAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT
genomic: GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacat ... catgtaacagCAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT
EST: gi|116403229|gb|EG445821.1|EG445821
EST:     GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG                         CAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT
genomic: GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacat ... catgtaacagCAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT
EST: gi|86082548|gb|DR378307.1|DR378307
EST:     GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG                         CAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT
genomic: GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAGgtaagaacat ... catgtaacagCAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT
EST: gi|164182555|gb|ES129932.1|ES129932
EST:     TTTTGCAACAGAGAG                         CAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT
genomic: TTTTGCAACAGAGAGgtaagaacat ... catgtaacagCAAATGGCAGGCATTTAAGTTGGCAACACTCTCTGGTTTAGCTGAGCCTCT