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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagccaaaaaagagtttttgttttcggtactcaattattagccgttgatctttcgtagactcagttctaatgtctgatttggtgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT

Basic information

species Arabidopsis thaliana
transcript AT3G01015.1
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|116397424|gb|EG440016.1|EG440016
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397420|gb|EG440012.1|EG440012
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397430|gb|EG440022.1|EG440022
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397429|gb|EG440021.1|EG440021
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397422|gb|EG440014.1|EG440014
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397433|gb|EG440025.1|EG440025
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397432|gb|EG440024.1|EG440024
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGTAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397434|gb|EG440026.1|EG440026
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397423|gb|EG440015.1|EG440015
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
EST: gi|116397428|gb|EG440020.1|EG440020
EST:     CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAG                         TGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
genomic: CTAGGACTAGAACAACCTCATGCCTCAGTTTCTTCATCATGGGACAATAGgtagccaaaa ... tgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagccgttgatctttcgtagactcagttctaatgtctgatttggtgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT
                           ttctaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagccaaaaaagagtttttgttttcggtactcaattattagccgttgatctttcgtagactcagttctaatgtctgatttggtgggttacagTGTTTCAAGTCTCAACTCAAATGGTGGCCGGAGGGGCAGAAGAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA