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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctgctctgctgtctgattccttaaacaagttaaacaggtctttttctaaactatgtgtggtttttattacagGCTGTGTCACTTAGAGAAATGGAAGACATTGCATCTTTAGAGAAGAAGTTGGGCCGTTTACTGACAAAACAGGAAAAGAGTAGGATTGGCATCAGTAAAC

Basic information

species Arabidopsis thaliana
transcript AT3G19720.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19720.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------gtctctgctctgctgtctgattccttaaacaagttaaacaggtctttttctaaactatgtgtggtttttattacagGCTGTGTCACTTAGAGAAATGGAAGACATTGCATCTTTAGAGAAGAAGTTGGGCCGTTTACTGACAAAACAGGAAAAGAGTAGGATTGGCATCAGTAAAC
                          || | | ||||| ||| | ||| || |   |  ||  | |  |   ||       | | |||  || ||| | |||||  | | | | ||||| |||||||||||||||||||||||  |||||||||| || ||| || || | || ||||  ||||| || ||  | || ||||
atgacattcagtttatatatattaatgttttt-ctctgttgttttatttct-atgtatatttcagaacttcattggcttgttttttgtacttcttagtgcagGCCATTTTATTAAGAGAGATGGAAGACATTGCATCTTTAGAAGAGAAGTTGGGTCGGTTATTGTCAGAGCAAGAAAGAAGTAGAATAGGTGTAAGCAAAC
















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|125192198|gb|EL207152.1|EL207152
EST:     TTGGCTATGGACAGGATTCAGTGTATAAGTCTAATGACGAGTTCAAACAG                         GCTGTGTCACTTAGAGAAATGGAAGACATTG
genomic: TTGGCTATGGACAGGATTCAGTGTATAAGTCTAATGACGAGTTCAAACAGgtctctgctc ... tttattacagGCTGTGTCACTTAGAGAAATGGAAGACATTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttaaacaagttaaacaggtctttttctaaactatgtgtggtttttattacagGCTGTGTCACTTAGAGAAATGGAAGACATTGCATCTTTAGAGAAGAAGTTGGGCCGTTTACTGACAAAACAGGAAAAGAGTAGGATTGGCATCAGTAAAC
                          ttctaaa  putative branch site (score: 2)
                                           tttttatt  putative PPT
                       tttttctaaactat  TA-rich tract