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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGAgtaagtctttgttcgattcttgcttcatatcatccttttgattctaaccaaatgcgagataacaaaactaacttgattagtatctttccag

Basic information

species Arabidopsis thaliana
transcript AT3G20650.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20650.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G22390.1 (Glycine max), 5'ss of exon 11
AAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGAgtaagtctttgt-tcgattcttgcttcatatcatcct---------tttgattctaaccaaatgcgagataacaaaactaacttgattagtatctttccag-------------------------------------------------
|||||||| ||||| ||||| || |||||||||||||| ||||| ||||| || |||||| |||| || ||||| ||||| ||||| | | | ||||| |||||  ||||||  | | |||  |||  ||    ||          ||  ||  ||        |    |  ||     ||    |||   | || ||| |                                                 
AAGAACTCGCACGAATTTGTACACGAGTATATGAAAAAACCAGAATTTGTGGAGCTCATGCGAAGACTCGGTGCATTGGGAGATGGCAACCAAGATCAAAgtaaccctttgtgcctactctatctttttaattcccccaaacttcattgaatattattttggctctctttgtcatgtgaaagcccattttcacctctcctggttaaggggaagcctagtaatgtagtacgtgtgtatatttctatatcag

upper sequence: AT3G20650.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA06G41190.1 (Glycine max), 5'ss of exon 11
AAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGAgtaagtctttgttc---gattcttgcttcatatcatccttttgattctaaccaaatgcgagataacaaaact-----------aacttgattagtatctttccag--------------------------------------------------
|||||||| || || ||||| ||||||||||||||||| || || ||||| || |||||| |||| |||||||| ||||| ||||| | | | ||||| |||||  |||||| |   |  |||  |||   |   ||  ||| |||  |   || |      |  |    ||           |||   |    || || ||| |                                                  
AAGAACTCACATGAATTTGTGCATGAGTATATGAAAAAACCGGAATTTGTGGAGCTCATGCGAAGACTTGGTGCATTGGGAGATGGCAACCAAGATCAAAgtaacactttgtgcccagtctctatcttttcaatttcaatttaatttcattgaactatttttttccctgtcttttgtatgtgaaaccccacctttacctctcctgattaacagaaaacctagtaacatagtgcatgtatgtattgctattgtcag

upper sequence: AT3G20650.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv19s0014g04740.t01 (Vitis vinifera), 5'ss of exon 11
AAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGAgtaagtctttgttcgattc--ttgcttcatatcatccttttgattctaaccaaatgcgagataacaaaactaacttgattagtatctt---tccag---------------------------------------------------------------------------------------------
|||||||| || || |||||  |||||||  ||||||| ||||| ||||| || || ||| | ||||| ||||||||||||||||| | | | || |||||||||||    | |  ||   || | ||  ||    |||||  |||    |  ||           |  ||   |  | | || |  |   || |                                                                                              
AAGAACTCACATGAATTTGTGGATGAGTACTTGAAAAAACCAGAATTTGTTGAGCTTATGCGGAGGCTAGGTGCTTTGGGTGATGGAAACCAAGACCAGAgtaagtccaattcctgtttgtttccctcccatatatcttttttttcccctctcatcttctccccttacccttcttcaacttgtgttctcattctaatgatggaacatttctcatttgccttctgaaattgcatcattttcacatctccaaagagtattgacttttaaaatatcgtctttcaatgtttag

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|19741823|gb|AU227176.1|AU227176
EST:     CGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGA                         GCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTG
genomic: CGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGAgtaagtcttt ... atctttccagGCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTG