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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgttagctttggttactataagaaaactatctctccaaggtcaatgtctaactattcgaatgtgcttactgcagCAACTAGAGATGCTTAAGTATATGCGTAAATTCTCTCTGGATGATCAATCTGCTATCCTTCAAAAG

Basic information

species Arabidopsis thaliana
transcript AT3G27050.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0068g01990.t01 (Vitis vinifera), 3'ss of exon 5
gtaatgttagctttggttactataagaaaactatctctccaaggtcaatgtctaactattcgaatgtg---cttactgcagCAACTAGAGATGCTTAAGTATATGCGTAAATTCTCTCTGGATGATCAATCTGCTATCCTTCAAAAG
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gtgaaatttatttaaacttgtttaaaaaaa-tgttggaagtaggt--attgctaacaggtagaaggtgaactgttttgcagCAACTAGAGATGCTAAAGCACATGCGCAAATTTCACCTGGATGATCAATCTGTAATCCTTGAAAAG
















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|124785907|gb|EH875586.1|EH875586
EST:     AATGAAAGCACTACAACAATTACAAGAACTAG                         CAACTAGAGATGCTTAAGTATATGCGTAAATTCTCTCTGGATGATCAATC
genomic: AATGAAAGCACTACAACAATTACAAGAAC-AGgtaatgttag ... cttactgcagCAACTAGAGATGCTTAAGTATATGCGTAAATTCTCTCTGGATGATCAATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaaaactatctctccaaggtcaatgtctaactattcgaatgtgcttactgcagCAACTAGAGATGCTTAAGTATATGCGTAAATTCTCTCTGGATGATCAATCTGCTATCCTTCAAAAG
                                           tgcttac  putative branch site (score: 2)
                             taactatt  TA-rich tract