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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcacttctttcttgcctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga...

Basic information

species Arabidopsis thaliana
transcript AT3G54840.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM5G863105_T01 (Zea mays), 5'ss of exon 3
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcacttctttcttgcctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga-
|||| |  |||   |||||||||||||   ||||| |||||||||||||||||||||||||| ||||| ||||| |||||||||||||| |||  |   | | |        | | | |   |   | |          |   ||  || |   |  ||   |    ||| ||| ||   ||    | 
GATGCACAGGACTATGCAGAGAAGAACAAAATGTTTTTCATTGAGACGTCAGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttgaatacataaactgtttgttttacataacatgtaagatgagaaacaaatctagctgcaaccattaatgctattc-ttgtttaaaaagaccag

upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G362088_T02 (Zea mays), 5'ss of exon 8
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcacttctttcttg---cctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga--
||||    |||    ||||||||||||   ||||| |||||||||||||| ||||||||||| ||||| ||||| |||||||||||||| |||  |   | | ||     | || ||||  ||    |            ||| || |  || |   | | |   | |  |||  | |||| |||  |    
GATGCGCAGGACTACGCAGAGAAGAACAATATGTTTTTCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttgagtgcatgaaatgtttgttttac-ataacatgcaagaggagaagcaattct--agctgcaactgttaatgttattc--tactttagaaaagatca

upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA10G35230.2 (Glycine max), 5'ss of exon 7
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcac------ttctttcttgcctctgatttatgatcgattt--tcttgtc-ctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga
||||| |  ||   |||||||||||| || ||||| ||||| ||||| || || |||||||| ||||| |||||| ||||||||||||| ||         ||||| ||| |   |  |  || ||  | ||  || || |  | || ||||    ||                                      
GATGGCACTGACTATGCAGAGAAGAATGGTATGTTTTTCATAGAGACATCTGCAAAGACAGCAGATAATATAAATGAACTGTTTGAGgtatgtttgatgttttcttccttacagttattagattataaaattaatcatgacattttgtatttggcaag--------------------------------------

upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA10G35230.1 (Glycine max), 5'ss of exon 7
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcac--ttctttcttgcctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga
||||| |  ||   |||||||||||| || ||||| ||||| ||||| || || |||||||| ||||| |||||| ||||||||||||| ||     |  |||||| | |    ||  |     ||    ||   |    |||||  |        |  ||  |  | |   |    |    ||| |  
GATGGCACTGACTATGCAGAGAAGAATGGTATGTTTTTCATAGAGACATCTGCAAAGACAGCAGATAATATAAATGAACTGTTTGAGgtatgtttgatgttttcttccttacagttattagattataaaattaatcatgacattttgtatttggcaagaatgagaatgtacgaacaatggaaaatag--

upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA20G32320.1 (Glycine max), 5'ss of exon 7
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcac--ttctttcttgcctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga
||||| |  ||   |||||||||||| |  ||||| ||||| ||||| || || |||||||| ||||| |||||| ||||||||||||| ||     |  |||||| | ||   ||  ||||  ||    ||   |    |||||  |        |  ||     | | | |    |    ||| |  
GATGGCACTGACTATGCAGAGAAGAATGATATGTTTTTCATAGAGACATCTGCAAAGACAGCAGATAATATAAATGAACTGTTTGAGgtatgtttgatgttttcttccttccagttattgatt-ataaaattaatcatgacattttgtatttggcaagaatgaaaatgtgtgaacagtagaaaatagt-

upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA10G35230.3 (Glycine max), 5'ss of exon 7
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtg--cacttctttcttgcctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga
                   ||||||| || ||||| ||||| ||||| || || |||||||| ||||| |||||| ||||||||||||| ||     |  |||||| | |    ||  |     ||    ||   |    |||||  |        |  ||  |  | |   |    |    ||| |  
-------------------AGAAGAATGGTATGTTTTTCATAGAGACATCTGCAAAGACAGCAGATAATATAAATGAACTGTTTGAGgtatgtttgatgttttcttccttacagttattagattataaaattaatcatgacattttgtatttggcaagaatgagaatgtacgaacaatggaaaatag--

upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv13s0019g04680.t01 (Vitis vinifera), 5'ss of exon 7
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcacttctttcttgcctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtt-tctttcattgctttggaattgga--
||||| || ||   |||||||||||| || |||||||| ||||| || || || |||||||| ||||||||||| || |||||||||||     | |     ||   | | | |  | | | |||||||  |  |  |   ||  | | || | ||     | | |   | || ||| | ||     |  
GATGGTATTGATTATGCAGAGAAGAATGGTATGTTCTTTATTGAAACATCTGCAAAGACAGCTGATAACATAAACCAGCTGTTTGAGgtacat-cctgaaatttattttttaatggtaacc-attttctatttgtaggacattgctaaaat-taatggcaagctgtgaataatagctctagatgaacaaa

upper sequence: AT3G54840.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S543_3V6.1 (Physcomitrella patens), 5'ss of exon 7
GATGGAATGGAGCTTGCAGAGAAGAACGGCATGTTCTTCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcacttctttcttgcctctgatttatgatcgattttcttgtcctctgcatttattgagatcttattatccgtttctttcattgctttggaattgga-------
|| |   | |    ||| || |  ||||||||||||||||| || |||||||| ||||| || |||||  | |||||| | ||||||||| | | |      |  | |  | || ||  ||  | ||   ||||      || |||  |     |||      |  | |  |||  | ||| || ||       
GAAGCCCTTGCCTATGCTGAAAGTAACGGCATGTTCTTCATCGAAACGTCAGCAAAGACTGCTGATAATGTGAATCAATTATTTGAGgtgag-attcacacatcacttgggtttaattgtcagtgttgcagtcc------ttcatttggcatgcattgaagtgtattatggttgagtgggatttagattcacct

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|124739219|gb|EH830381.1|EH830381
EST:     TCATTGAGACGTCAGCCAAGACTGCCGATAACATAAATCAACTGTTTGAG                         TGTACACATGTCTGATAGGAAATTGGCAAGAGG
genomic: TCATTGAGACGTCAGCCAAGACAGCCGATAACATAAATCAACTGTTTGAGgtgtgcactt ... cttgttgtagTGTACACATGTCTGATAGGAAATTGGCAAGAGG