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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttcaaggaattagctctttggattttgattttcgtggcttgtttctccttacatgtaaaggaacaatttttatggggttttgtctctgttctgttgtaaagtttgaaactttgaatctgtcttacaagttaagagttttgaatcactctgattggacttgtgctttgttaatcgacagATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAAGGAAACTG

Basic information

species Arabidopsis thaliana
transcript AT3G56310.2
intron # 1
splice site 3'
intron type U2

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|152034686|gb|BP834690.2|BP834690
EST:     TACGGACGCTTGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGG                         ATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA
genomic: TACGGACGCTTGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGGgtaggttcaa ... taatcgacagATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA
EST: gi|152034272|gb|BP823774.2|BP823774
EST:     TACGGACGCTTGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGG                         ATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA
genomic: TACGGACGCTTGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGGgtaggttcaa ... taatcgacagATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA
EST: gi|164054343|gb|ES187496.1|ES187496
EST:     TGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGG                         ATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA
genomic: TGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGGgtaggttcaa ... taatcgacagATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA
EST: gi|125058789|gb|EL127466.1|EL127466
EST:     CTTGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGG                         ATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA
genomic: CTTGCAGCTCAACAATGGCCTTGCTCGAACTCCACAAATGGGgtaggttcaa ... taatcgacagATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagttaagagttttgaatcactctgattggacttgtgctttgttaatcgacagATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAAGGAAACTG
                                          tgttaat  putative branch site (score: 3)
                                       ctttgtt  CT-rich tract
                                        tttgttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggttcaaggaattagctctttggattttgattttcgtggcttgtttctccttacatgtaaaggaacaatttttatggggttttgtctctgttctgttgtaaagtttgaaactttgaatctgtcttacaagttaagagttttgaatcactctgattggacttgtgctttgttaatcgacagATGGAATAGCTGGAATTTCTTTGCTTGCAATATCAATGAAACTGTCATAAAGGAAACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA