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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttcttctacagttcgagctacattatgtttataatgcaaataatctatctgcattctgatttctaattagtaagtctttcaatctgtccaatccataaccatattatgacccatcatatgttctttgttcagATCGTGGGCCGAGGAGGAAGCAAAGAAAGCTAGAGAACAAGGGAGGGCCTTAGAAGAAGCTAGAAAGCGATGGGAAACAAATGGACTGAGAGTTGTTGTT

Basic information

species Arabidopsis thaliana
transcript AT5G23890.1
intron # 9
splice site 3'
intron type U2


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaatctgtccaatccataaccatattatgacccatcatatgttctttgttcagATCGTGGGCCGAGGAGGAAGCAAAGAAAGCTAGAGAACAAGGGAGGGCCTTAGAAGAAGCTAGAAAGCGATGGGAAACAAATGGACTGAGAGTTGTTGTT
               ccataac  putative branch site (score: 3)
                                           ttctttgttc  putative PPT
                       atattatga  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttcttctacagttcgagctacattatgtttataatgcaaataatctatctgcattctgatttctaattagtaagtctttcaatctgtccaatccataaccatattatgacccatcatatgttctttgttcagATCGTGGGCCGAGGAGGAAGCAAAGAAAGCTAGAGAACAAGGGAGGGCCTTAGAAGAAGCTAGAAAGCGATGGGAAACAAATGGACTGAGAGTTGTTGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC