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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgtgcttctctgtactagcggttccaggacataaattctcttctttctttctgatcaagtctgaaatttacgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAAGATCGACGCTATAAAAACCGTGAGTTGCAACTAATGCGACCAATGGATC

Basic information

species Arabidopsis thaliana
transcript AT1G06390.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G06390.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G15470.2 (Glycine max), 3'ss of exon 3
----------------------gtattttgtgcttct-ctgtactagcggttccaggacataaattctcttctttctttct--gatcaagtctgaaatttac---gattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAAGATCGACGCTATAAAAACCGTGAGTTGCAACTAATGCGACCAATGGATC
                       |      |  | ||  |   ||  |  | |    |||||  |  |  | || |   |   |||    |      |||||    | | ||||| || |||||||| ||||||||| |||| || ||||||||||||||||||||  | || || ||||| ||||| |||||  |||||||   ||||||||
gtatggatgaacaatcacctagatgacaaatattcctattaagctttctctgctgtcacatatctcattgttttccacccctggatggcattcctcttttacctaaaatatagGCAAAGTGCTTGGAGACTGGAGAAGCAGTGGCTATTAAAAAGGTCTTGCAAGACAGGCGGTACAAAAATCGTGAATTGCAGTTAATGCGCTTAATGGATC

upper sequence: AT1G06390.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G42840.1 (Glycine max), 3'ss of exon 3
-------------------------gtattttgtgcttctctgtactagcggttccaggacataaattctcttctttctttctgatcaagtctgaaatttac---gattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAAGATCGACGCTATAAAAACCGTGAGTTGCAACTAATGCGACCAATGGATC
                           |  |  | ||| |  |   |  | | |       ||    |   ||    |     ||| |  | |    |||||    |   ||||| || |||||||| ||||||||  |||| || ||||||||||||||||||||  | || || ||||| ||||| |||||  |||||||   ||||||||
gtaaggatgaacaatcaccaaggtgacaactattccttttaagctttctctgctgtcaagtatctcattgttttccaccactggatgacatttctcttttacctaaaacatagGCAAAGTGCTTGGAGACTGGAGAGGCAGTGGCTATTAAAAAGGTCTTGCAAGACAGGCGGTACAAAAATCGTGAATTGCAGTTAATGCGCTTAATGGATC

upper sequence: AT1G06390.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 3'ss of exon 3
gtattttgtgcttctctgtactagcggttccaggacataaattctcttctttctttctgat--caagtctgaaatttacgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAAGATCGACGCTATAAAAACCGTGAGTTGCAACTAATGCGACCAATGGATC
||| |  ||    |  | | |||||   | ||| |     |  |   ||||| |   |||   |     || || ||    ||  |||| ||||||||||||||||||||| | || || || ||||||||||| |||||  | || |||||||| |||||| ||||  || ||||    |||||||
gtacta-gtataccagttttctagcaaattcagtattctcacccgtctctttatcattgaaggctctcttgtaactttt--ttccagGCAAAATGCTTGGAAACTGGAGAAACTGTCGCAATAAAAAAGGTCTTACAAGACAGGCGGTATAAAAATCGTGAGCTGCAGTTATTGCGCTTGATGGATC

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|86037640|gb|DR333395.1|DR333395
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GGCGAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAAGGTCTTG
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagG-CGAAA-TGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAA-GGTCTTG
EST: gi|125087392|gb|EL146536.1|EL146536
EST:     CATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: CATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037629|gb|DR333384.1|DR333384
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037635|gb|DR333390.1|DR333390
EST:     CATGAGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: CATG-GCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037634|gb|DR333389.1|DR333389
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037637|gb|DR333392.1|DR333392
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037633|gb|DR333388.1|DR333388
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037631|gb|DR333386.1|DR333386
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|125319968|gb|EL334053.1|EL334053
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGA
EST: gi|86037632|gb|DR333387.1|DR333387
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037630|gb|DR333385.1|DR333385
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037641|gb|DR333396.1|DR333396
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
EST: gi|86037636|gb|DR333391.1|DR333391
EST:     ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAG                         GCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA
genomic: ACATGGCTGAGCGGGTTGTTGGAACAGGTTCATTCGGGATTGTTTTTCAGgtattttgtg ... acgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caggacataaattctcttctttctttctgatcaagtctgaaatttacgattttagGCGAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAAAAGGTCTTGCAAGATCGACGCTATAAAAACCGTGAGTTGCAACTAATGCGACCAATGGATC
                        ttctgat  putative branch site (score: 3)
                                       aaatttacgatttta  TA-rich tract