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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcattttctgtttcttcatttccgattgattgttgattctatcttccctgaatttataccatctagagataagcttaagtgaatcacaggaactctaatgagtatgtttgttcttcttgtttaagtgagtttagtttctaaaaacttctgttttgatggatttgagcagGCAATGTCGTATGCAAGGTTAGCTGGGCTTCAACCAATATACGGTCTAT

Basic information

species Arabidopsis thaliana
transcript AT3G12520.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G12520.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os09g06499.2 (Oryza sativa), 3'ss of exon 2
gtcattttctgtttcttcatttccgattgattgttgattctatcttccctgaatttataccatctagagataagcttaagtgaatcacaggaactctaatgagtatgtttgttcttcttgtttaagtgagtttagtttctaaaaacttctgttttgatggatttgagcagGCAATGTCGTATGCAAGGTTAGCTGGGCTTCAACCAATATACGGTCTAT
                                                      | | |   |   || | ||   |       ||| | |  ||  ||  | ||         | |  |   || |||   ||     ||| || |    || |  ||         |||||||||| ||||||| ||| ||||||||||| |||||||| ||  |||
------------------------------------------------------taaaagtcttccgatacaaatatgcaatggtca-aagtcctgaaaataataaccaaaaaatgccag---aaatgaaaata----ttaataattagcattgtattg--------tagGCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT

upper sequence: AT3G12520.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv13s0019g00010.t01 (Vitis vinifera), 3'ss of exon 1
gtcattttctgtttcttcatttccgattgattgttgattctatcttccctgaatttataccatctagagataagcttaagtgaatcacaggaactctaatgagtatgtttgttcttcttgtttaagtgagtttagtttctaaaaacttctgttttgatggatttgagcagGCAATGTCGTATGCAAGGTTAGCTGGGCTTCAACCAATATACGGTCTAT
                                                                   | ||| | ||  || |   |  |  | | ||   ||  || |||||    ||||| || | | | |  | |     | ||  |  |||| ||    ||  ||||||||||| ||||||||||||||||||||| |||||||||| || || |
-----------------------------------------------------------------tcaaataggattgggt-atctaaggttaatttacatagcgtgattgtttacattgttgaa-taaatatgttctgc---agctgattgtttgttgtgcatgtccagGCAATGTCTTATGCAAGGTTAGCTGGGCTTGAACCAATATATGGACTTT
















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|19877624|gb|AU238455.1|AU238455
EST:     AGCTCGATCTTATGGCTGGTATCACCGTCGGTATCATGCTTGTTCCCCAG                         GCAATGTCGTATGCAAGGTTAGCTGGGCTTCAACCAATATACGGTCTAT
genomic: AGCTCGATCTTATGGCTGGTATCACCGTCGGTATCATGCTTGTTCCCCAGgtcattttct ... atttgagcagGCAATGTCGTATGCAAGGTTAGCTGGGCTTCAACCAATATACGGTCTAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgtttaagtgagtttagtttctaaaaacttctgttttgatggatttgagcagGCAATGTCGTATGCAAGGTTAGCTGGGCTTCAACCAATATACGGTCTAT
               tttagtttctaaaaa  TA-rich tract