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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGGGTTTGCCATTGGATCTGCTGCACTTGCATCATTCCTTCTCTTTAGTGCGTATATGGACGAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAGgtagatttcgttatgcatcgttgctgtattctcgatgttgagacaacttctcatactcatcctcggataaaatcag

Basic information

species Arabidopsis thaliana
transcript AT1G78920.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G78920.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G075900_T01 (Zea mays), 5'ss of exon 11
GAAAGGGTTTGCCATTGGATCTGCTGCACTTGCATCATTCCTTCTCTTTAGTGCGTATATGGACGAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAGgtagatttcgttatgcatcgttgc-tgtattctcgatgttgagacaac-ttctcatactca-tcctcggataaaatcag-----
 ||||| |||||||| ||||| || ||||| ||||||||||| || |||||||| || |||||||| ||  |  | |||||| |  || | ||||| ||||||   | |  || |  | | |      ||     ||  |||       | |||||| ||| |  ||| | | |||        
AAAAGGATTTGCCATAGGATCAGCAGCACTGGCATCATTCCTCCTGTTTAGTGCATACATGGACGAAGTAGCTTCTTTTGCTCAAATGCCGTTCAAGGAGgta---tgcagtacgtgttgctatgcccatgtggaatactgaacttttgtgctcatattcagtgatcgtacacaattgttgcag

upper sequence: AT1G78920.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 11
GAAAGGGTTTGCCATTGGATCTGCTGCACTTGCATCATTCCTTCTCTTTAGTGCGTATATGGACGAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAGgtagatttcgtta--tgcatcgttgctgtattctcgat-gttgagacaacttctcatactcatcctcggataaaatcag----------------------
 ||||||||||| ||||| |||||||| |||||||| |||||| | |||||||| ||||||||||||||||| || |||||| |||   |||| ||| ||||         ||  | || | |   |    |     | ||| ||    ||    | |  ||| ||||| |       |                      
CAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCATCTTTCCTTTTGTTTAGTGCTTATATGGACGAGGTTTCTGCATTTGCTCATGAACCTTTTAAACAGgtgcgcagaactagcttcaacctaattaggcttaaatttgtttaggtccctatata-atacatgctcggtttgttgatgttctgttttttttttaagagga

upper sequence: AT1G78920.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G24120.1 (Glycine max), 5'ss of exon 10
GAAAGGGTTTGCCATTGGATCTGCTGCACTTGCATCATTCCTTCTCTTTAGTGCGTATATGGACGAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAGgtagatttcgttatgcatcgttgctgtattctcga---tgttgagacaact-tctcatac-tcatcctcggataaaatcag-------------------
 ||||||||||| ||||| |||||||| |||||||| |||||| | |||||||| |||||||| ||||||||  | |||||| |||   |||| ||| ||||         ||   |  |      ||  ||  |   |||| ||    || | | |||| |  || |  | | |  |                      
CAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCATCTTTCCTTTTGTTTAGTGCTTATATGGATGAGGTTTCTTCATTTGCTCATGAACCTTTTAAACAGgtgcgcagaactagctacagcctaattaggcttaaatttgtttaggtccctatataatacatgctcgtttgttgatgttctgttttgttgaataggaggg

upper sequence: AT1G78920.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 11
GAAAGGGTTTGCCATTGGATCTGCTGCACTTGCATCATTCCTTCTCTTTAGTGCGTATATGGACGAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAGgtagatttcgttatgcatcgttgctgtattctcgatgttgagacaacttctcatactcatcctcggataaaatcag-------
 || || || ||||||||||| || ||||| ||||| |||||||| || ||||| |||||||| ||||| ||||| |||||| |||   |||| ||  |||||  |      |  |  | ||| | | |||    |||| | |     |  |  |||  |  |       |||||        
CAAGGGATTCGCCATTGGATCCGCGGCACTCGCATCCTTCCTTCTGTTCAGTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaagt----ggacactactttgatctcttcatcgtgtttacattctctaactcactgcttttttatgttaatcaccttacag

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|125264374|gb|EL278459.1|EL278459
EST:     GAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAG                         GTTGATATTGCTATCCCAGAAGTGTTCGTTGGTGGATTA
genomic: GAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAGgtagatttcg ... ataaaatcagGTTGATATTGCTATCCCAGAAGTGTTCGTTGGTGGATTA