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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgatgtgtcacaagatttcattcaatcaagagctctctcagactgaagagttctgtaaacatatccgaaagatgttgaagcctgatgcaatgaaatctggtgcattcagcattctttttcttttgctgactgggggatttcatttcttgtttggcagTCCATTGGTTTCATTGGTCCTGGAATTGCTCTCATTGGTCTAACGACGGCAAAACAACCTTTAGTGGCATCAGCCTGGCTTAGTTTAGCCGTTGGGCTTA

Basic information

species Arabidopsis thaliana
transcript AT3G46980.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G46980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 5
gtgcgtgatgtgtcacaagatttcattcaatcaagagctctctcagactgaagagttctgtaaacatatccgaaagatgttgaagcctgatgcaatgaaatctggtgcattcagcattcttt---ttcttttgctgactgggggatttcatttcttgtttggcagTCCATTGGTTTCATTGGTCCTGGAATTGCTCTCATTGGTCTAACGACGGCAAAACAACCTTTAGTGGCATCAGCCTGGCTTAGTTTAGCCGTTGGGCTTA
                                                             || | | | | |    | |   | |||  | | |   |  ||||     | |    |  ||   |   |||  | |       || |   | ||| | || ||||| ||||| ||  ||||||||||||||||||| |||||||||||  | ||||||   || ||| | ||||| || ||||||| | |||||||||||||||
------------------------------------------------------------caacctttttccatctttttactacccttgttcta---atcctggattccttactgctaattgagtctatttattaagcaataaatct-gctgcttctctg-cagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCAAAAAGCCCATTAATTGCATCTGCTTGGCTTACTCTAGCCGTTGGGCTTA
















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|125289706|gb|EL303791.1|EL303791
EST:     TACAAGCATCACCTTAACGCGAAAAATCATGCAG                         TCCATTGGTTTCATTGGTCCTGGAATTGCTCTCATTGGTCTAACGACGGCA
genomic: TACAAGCATCACCTTAACGCGAAAAATCATGCAGgtgcgtgatg ... tgtttggcagTCCATTGGTTTCATTGGTCCTGGAATTGCTCTCATTGGTCTAACGACGGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcagcattctttttcttttgctgactgggggatttcatttcttgtttggcagTCCATTGGTTTCATTGGTCCTGGAATTGCTCTCATTGGTCTAACGACGGCAAAACAACCTTTAGTGGCATCAGCCTGGCTTAGTTTAGCCGTTGGGCTTA
                     tgctgac  putative branch site (score: 2)
                                   tttcatttcttgttt  putative PPT
        attctttttctttt  TA-rich tract