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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcatccctcacaatttgcttctaggtttcttcgctttagcttatgcatatttggatgtgatcttctttctggctgatgattattgttgatctcttctttttccttcagCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGG

Basic information

species Arabidopsis thaliana
transcript AT4G32330.3
intron # 3
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|164144945|gb|ES074195.1|ES074195
EST:     ATCCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACAAGTCACAAAG                         CAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCT
genomic: ATCCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACAAGTCACAAAGgtaatcatcc ... tttccttcagCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCT
EST: gi|164123251|gb|ES088818.1|ES088818
EST:     CCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACAAGTCACAAAG                         CAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGG
genomic: CCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACAAGTCACAAAGgtaatcatcc ... tttccttcagCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGG
EST: gi|164164288|gb|ES049853.1|ES049853
EST:     TCCTCTTAAGAGCAAATCATTCAATGGGGCGAGAGGCACAAGTCACAAAG                         CAAGGGAAGCATGACTC
genomic: TCCTCTTAAGAGCAAATCATTCAATGGG-CGAGAGGCACAAGTCACAAAGgtaatcatcc ... tttccttcagCAAGGGAAGCATGACTC
EST: gi|164081903|gb|ES028118.1|ES028118
EST:     CCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACAAGTCACTAAAG                         CAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGG
genomic: CCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACAAGTCAC-AAAGgtaatcatcc ... tttccttcagCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtgatcttctttctggctgatgattattgttgatctcttctttttccttcagCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGG
                              tgttgat  putative branch site (score: 4)
                          ttattgttgatctctt  CT-rich tract
                      atgattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatcatccctcacaatttgcttctaggtttcttcgctttagcttatgcatatttggatgtgatcttctttctggctgatgattattgttgatctcttctttttccttcagCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT