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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttaatctggaattgggactggctgataccttgttaggcggtggttaccttttacttgacatggcgctattagtttcaaattttacgtttctgtttcagGTTGACATGGTTACTCCTATGTGTTCCCAGTTAACTTATGAGGGACTAATAGACGAG

Basic information

species Arabidopsis thaliana
transcript AT3G54860.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G54860.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G35210.1 (Glycine max), 3'ss of exon 8
-acttaatctggaattgggactggctgatacc-ttgttaggcggtggttaccttttacttgacatggcgctattagtttcaaattttacgtttctgt-ttcagGTTGACATGGTTACTCCTATGTGTTCCCAGTTAACTTATGAGGGACTAATAGACGAG----
  | |         |  || |   ||  | |  ||||| ||   ||  |    |  ||  ||      |  |||   ||    |   | | || ||  | ||||| ||||||||||||||| |||||||||| ||||| |||||||| ||| | ||||||    
tgcatttctctttttgaggtcctactatttcagttgtttggatatgagtggtgtccacacgaatgatggtcattgaatttgggt---atgcttttgaatgcagGTGGACATGGTTACTCCTTTGTGTTCCCAATTAACATATGAGGGGCTACTTGACGAGGCAA
















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|125222791|gb|EL236876.1|EL236876
EST:     TGGGAAGGCCTGAAGTGGATACACTCATTCTATTGGATAGAGAG                         GTTGACATGGTTACTCCTATGTGTTCCCAGTTAACTTATGAGGGGCTAATA
genomic: TGGGAAGGCCTGAAGTGGATACACTCATTCTATTGGATAGAGAGgtaagattac ... tctgtttcagGTTGACATGGTTACTCCTATGTGTTCCCAGTTAACTTATGAGGGACTAATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaccttttacttgacatggcgctattagtttcaaattttacgtttctgtttcagGTTGACATGGTTACTCCTATGTGTTCCCAGTTAACTTATGAGGGACTAATAGACGAG
         acttgac  putative branch site (score: 4)
                                           tttctgtttc  putative PPT
                       tattagtttcaaattt  TA-rich tract