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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgatttcagaatctggaacggttgaattttatatgattcgctaaacacttcttttatcctttggcattcctttttcgagttgtaaaaacctgaatttctaagttctgggtgcttctccgttacagGGTTGTTAGCCAAGTGGAATACCCATCGCTGGTCGATTTGAGGGGTCTCCTTCTTGACTTGGTTGCTCAACTCCTGGGTGCACTGTCCCGTATTAG

Basic information

species Arabidopsis thaliana
transcript AT5G15680.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G15680.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G06550.1 (Glycine max), 3'ss of exon 5
gtagtgatttcagaatctggaacggttgaattttatatgattcgctaaacacttcttttatcctttggcattcctttttcgagttgtaaaaacctgaatttctaagttctgggtgcttctccgttacagGGTTGTTAGCCAAGTGGAATACCCATCGCTGGTCGATTTGAGGGGTCTCCTTCTTGACTTGGTTGCTCAACTCCTGGGTGCACTGTCCCGTATTAG
                  | |||     ||| | |  |     | | ||   | | |  |   |||     || | ||     || ||  ||| |   | |   |  |    |||||  |  ||| ||||||||||||||| || ||||| || || ||||| ||||||||||| || ||||| ||||| |||||||||||| | ||||| || |||||||| ||
------------------gaaacaa---aatataacgtttcatgattaagtttccatagactttttaattctcttattc----ttctattaactttggtgt--gaacttattgtgctctt--gttgcagGGTTGTTAGCCAGGTTGAATATCCCTCACTGGTTGATTTGAGGGGGCTTCTTCTGGACTTAGTTGCTCAACTCTTAGGTGCTCTATCCCGTATCAG

upper sequence: AT5G15680.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA19G04970.1 (Glycine max), 3'ss of exon 1
gtagtgatttcagaatctggaacggttgaattttatatgattcgctaaacacttcttttatcctttggcattcctttttcgagttgtaaaaacctgaatttctaagttctgggtgcttctccgttacagGGTTGTTAGCCAAGTGGAATACCCATCGCTGGTCGATTTGAGGGGTCTCCTTCTTGACTTGGTTGCTCAACTCCTGGGTGCACTGTCCCGTATTAG
                  | |||     ||| | |  |     | | ||   | | |  |   |||     || | ||     || ||  ||| |   | |  |    ||  |||       ||| ||||||||||||||| || ||||| || || ||||| ||| ||||||| || ||||| ||||| |||||||||||| | ||||| ||||||||||| ||
------------------gaaacaa---aatataaagtttcatgattaagtttccatagactttttaattctcttattc----ttctatgaactttggtgtgaa----cttagtgaactcttgttccagGGTTGTTAGCCAGGTTGAATATCCCTCACTGGTTGATCTGAGGGGGCTTCTTCTGGACTTAGTTGCTCAACTCTTAGGTGCTCTGTCCCGTATCAG
















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|116437673|gb|EG480265.1|EG480265
EST:     TGGTCTGGACTTGAGAACTTTGTTTTTGATTGGCTAATCAACGCTGACAG                         GGTTGTTAGCCAAGTGGAATACCCATCGCTGGTCGATTTGAGGGGTCTCCT
genomic: TGGTCTGGACTTGAGAACTTTGTTTTTGATTGGCTAATCAACGCTGACAGgtagtgattt ... tccgttacagGGTTGTTAGCCAAGTGGAATACCCATCGCTGGTCGATTTGAGGGGTCTCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcgagttgtaaaaacctgaatttctaagttctgggtgcttctccgttacagGGTTGTTAGCCAAGTGGAATACCCATCGCTGGTCGATTTGAGGGGTCTCCTTCTTGACTTGGTTGCTCAACTCCTGGGTGCACTGTCCCGTATTAG
                                         cttctccgtt  CT-rich tract
         ttgtaaaaa  TA-rich tract