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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatatttttttctcagacatcttcttcattgatggtatttggattagtgtacttattattgtcttgattatgttgtcagATTAAGCCTTTGGATCACTCTCATGATTTACCACCTCCGGGTAAAAAAGGAAGGACTTATATTTGTAGCTGTATGATTTTCTTGCGTCCCACTAATGGCG

Basic information

species Arabidopsis thaliana
transcript AT4G01220.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G01220.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 2
-----gtatg-tatatttttttctcagacatcttcttcattgatggt-------atttggattagtgtacttatta---ttgtcttgattatgttgtcagATTAAGCCTTTGGATCACTCTCATGATTTACCACCTCCGGGTAAAAAAGGAAGGACTTATATTTGTAGCTGTATGATTTTCTTGCGTCCCACTAATGGCG
     ||||  ||||| ||        | ||  |  ||||  ||          |||| | ||  | ||   |||    ||||  |  ||  || | ||| | || |||||| | |||||||||||||| |||||||| || ||||| ||  | || ||||| || ||||| ||||||||| |||| |||||| |||| |
gcaatgtatcctatatcttgaaggtgcatattcttatcatccataaagtgtgcaattttggttgctttatccatttcttttgttctttttgggtggccagGTGAAACCTTTGAACCACTCTCATGATTTGCCACCTCCAGGGAAAAAGGGCCGCACCTATATATGCAGCTGCATGATTTTCATGCGCCCCACTGATGGAG

upper sequence: AT4G01220.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0046g01630.t01 (Vitis vinifera), 3'ss of exon 2
---------------gtatgtatatttttttctcagacat-cttcttcattgatggtatttggattagtgtacttattattgtcttgattatgttgtcagATTAAGCCTTTGGATCACTCTCATGATTTACCACCTCCGGGTAAAAAAGGAAGGACTTATATTTGTAGCTGTATGATTTTCTTGCGTCCCACTAATGGCG
               | |  | || || |  |    | |  ||||| |  |  ||||  |   ||||   ||  ||    | |  |  ||  ||   ||| | || ||| || | ||||||||||||||||||||||| || ||||||||  | ||||| ||||| ||||| ||||||||| |||| ||||| ||||| |
tgtattgcttgccttgaagttgtacttctacccagcatacacttctaccgttttggttgtcacattaagttatatacatattttctctttgggtgaccagGTGAAACCTCTGAACCACTCTCATGATTTACCACCTCCAGGGAAAAAAGGGCGCACTTACATTTGCAGCTGCATGATTTTCATGCGCCCCACCAATGGAG
















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|86088022|gb|DR383781.1|DR383781
EST:     ATGGATGATATGACTGCA                         ATTAAGCCTTTGGATCACTCTCATGATTTACCACCTCCGGGTAAAAAAGGA
genomic: ATGGATGATATGACTGCAgtatgtatat ... atgttgtcagATTAAGCCTTTGGATCACTCTCATGATTTACCACCTCCGGGTAAAAAAGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattgatggtatttggattagtgtacttattattgtcttgattatgttgtcagATTAAGCCTTTGGATCACTCTCATGATTTACCACCTCCGGGTAAAAAAGGAAGGACTTATATTTGTAGCTGTATGATTTTCTTGCGTCCCACTAATGGCG
                                     tcttgat  putative branch site (score: 4)
                         tacttattatt  TA-rich tract