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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataactcttaatcagaagtcctgatctctacgttttctttctattctgtttgccaatttatgacatatgctgagagtttgagtgcggcttgtataatttctctctgggcatcctgtctcagGTCATGAAAGGCTTTGAACCGAGTGAACGTTGCTTGCTCCTCAAATTTGTGACTAGTTGTTCTCGGGCACCACTCCTTGGTTTCAAATACTTGCAGCCAA

Basic information

species Arabidopsis thaliana
transcript AT3G53090.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G53090.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA03G34650.1 (Glycine max), 3'ss of exon 12
gtaataactcttaatcagaagtcctgatctctacgttttctttctattctgtttgccaatttatgacatatgctgagagtttgagtgcggcttgtataatttctctctgggcatcctgtctcagGTCATGAAAGGCTTTGAACCGAGTGAACGTTGCTTGCTCCTCAAATTTGTGACTAGTTGTTCTCGGGCACCACTCCTTGGTTTCAAATACTTGCAGCCAA
                      |||| |   |    |||       || ||  ||| | ||| || || ||||  |   |  ||   |   ||  ||  | |   |     || |      ||||| || |||||||||||||| |  || || ||  |||| || |||||||| || ||||||||||| || ||| | ||||| |||||||||||||||||| 
----------------------cctggtgaattatatttgaagagtttatgcatgcta-tttgtg-cagatgccaattttaagatatctattttcattttctgctttcttccaactgtgtacagGTAATTAAAGGCTTTGAACCTAAAGAGCGCTGTATGCTTCTTAAATTTGTCACCAGTTGTTCTCGTGCTCCATTACTTGGGTTCAAATACTTGCAGCCAC

upper sequence: AT3G53090.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA19G37310.3 (Glycine max), 3'ss of exon 13
gtaataactcttaatcagaagtcctgatctctacgttttctttctattctgtttgccaatttatgacatatgctgagagtttgagtgcggcttgtataatttct-ctctgggcatcctgtct-cagGTCATGAAAGGCTTTGAACCGAGTGAACGTTGCTTGCTCCTCAAATTTGTGACTAGTTGTTCTCGGGCACCACTCCTTGGTTTCAAATACTTGCAGCCAA
                      ||| ||   |   | ||       |  ||  ||| | ||| || || ||||  |   ||| ||       ||| || ||||| || |  ||   |||| | ||||| || |||||||||||||| |  || || ||  |||| || |||||||| || ||||||||||| || ||| | ||||| |||||||||||||||||| 
---------------------gcctcatgagt-tatattgaagagttcatgcatgcta-tttgtg-cagatgccaat--tttaagatatctatgtttattttctgctttctgccaactgtgtacagGTAATTAAAGGCTTTGAACCTAAAGAGCGCTGTATGCTTCTTAAATTTGTCACCAGTTGTTCTCGTGCCCCATTACTTGGGTTCAAATACTTGCAGCCAC
















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|125215877|gb|EL229960.1|EL229960
EST:     ACACTGGTGGTTACAGTGATAGCAGTCGAACAATCAAAATCTTCTGGGAG                         GTCATGAAAGGCTTTGAACCGAGTGA
genomic: ACACTGGTGGTTACAGTGATAGCAGTCGAACAATCAAAATCTTCTGGGAGgtaataactc ... cctgtctcagGTCATGAAAGGCTTTGAACCGAGTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgctgagagtttgagtgcggcttgtataatttctctctgggcatcctgtctcagGTCATGAAAGGCTTTGAACCGAGTGAACGTTGCTTGCTCCTCAAATTTGTGACTAGTTGTTCTCGGGCACCACTCCTTGGTTTCAAATACTTGCAGCCAA
                                            tcctgtctc  CT-rich tract
                      ttgtataattt  TA-rich tract