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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagattttagattcatagctaatagcttgtctatgcttttacatctagcatctgaataactttggtttctgttttttttgctcagCTGCAAGAATTGGGAAAGGAATATTGTTGGATCATGGAACTGGTGTGGTCATAGGTGAGACTGCTGTGATAGGCGACCGTGTCTCAATTTTGCAT

Basic information

species Arabidopsis thaliana
transcript AT4G35640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35640.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G048740_T03 (Zea mays), 3'ss of exon 5
------gtaaagattttagattcatagctaatagcttgtctatgcttttacatctagcat---ctgaataactttggt---ttctgttttttttgctcagCTGCAAGAATTGGGAAAGGAATATTGTTGGATCATGGAACTGGTGTGGTCATAGGTGAGACTGCTGTGATAGGCGACCGTGTCTCAATTTTGCAT
       |  | || || ||||  |   |  |      | |||||||| | |  ||   |    ||  |  |||  ||   || | |||||      ||||||| | ||||||  | ||||||||||||||||||||||| ||| | ||||| ||||| ||||||||  | ||  || | || ||| |  |||| 
tgtgaaatccaaatgtttgattatttatttttttaggttgtatgctttgatacttaattttttttgtgtgtcttcagtgttttttatttttaacatgcagCTGCCAAAATTGGCGAGGGAATATTGTTGGATCATGGAACAGGTCTAGTCATTGGTGAAACTGCTGTAGTTGGAAACTGGGTTTCATTAATGCAG
















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|124916854|gb|EH990728.1|EH990728
EST:     GTTTTTGGAATCGATATTCATCCCG                         CTGCAAGAATTGGGAAAGGAATATTGTTGGATCATGGAACTGGTGTGGT
genomic: GTTTTTGGAATCGATATTCATCCCGgtaaagattt ... ttttgctcagCTGCAAGAATTGGGAAAGGAATATTGTTGGATCATGGAACTGGTGTGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgcttttacatctagcatctgaataactttggtttctgttttttttgctcagCTGCAAGAATTGGGAAAGGAATATTGTTGGATCATGGAACTGGTGTGGTCATAGGTGAGACTGCTGTGATAGGCGACCGTGTCTCAATTTTGCAT
                       gaataac  putative branch site (score: 2)
                                   tttctgttttttttgc  putative PPT
                                   tttctgtttttttt  TA-rich tract