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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatctttcttgtctattcagacaaagccaatttatatagaaactaaccttggttgctttatgaatgtgtgtttcag

Basic information

species Arabidopsis thaliana
transcript AT5G58330.3
intron # 11
splice site 5'
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|86080979|gb|DR376736.1|DR376736
EST:     AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
genomic: AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
EST: gi|86078149|gb|DR373906.1|DR373906
EST:     AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
genomic: AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
EST: gi|86081501|gb|DR377258.1|DR377258
EST:     AAGCGGAACTGTTGGCTGAGAAGAGATATGTTGCAC-C-TCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
genomic: AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
EST: gi|125079333|gb|EL141378.1|EL141378
EST:     TTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTAGGTCCGGTAGATACTATGCTTCCTGGGGA
genomic: TTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTT-GGTCCGGTAGATACTATGCTTCCTGGGGA
EST: gi|116454053|gb|EG496645.1|EG496645
EST:     AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
genomic: AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
EST: gi|124832511|gb|EH916950.1|EH916950
EST:     GTGTTGCACACCTCACTGGAGAG                         GGCTATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGA
genomic: GTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGC-ATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGA
EST: gi|125000751|gb|EL073020.1|EL073020
EST:     AAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
genomic: AAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
EST: gi|86087424|gb|DR383183.1|DR383183
EST:     AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
genomic: AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
EST: gi|125201124|gb|EL216078.1|EL216078
EST:     AAGCGGAACTGTTGACTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTA
genomic: AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTA
EST: gi|222357309|gb|GH718579.1|GH718579
EST:     AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG                         GGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA
genomic: AAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatct ... tgtgtttcagGGCATTGCCTACTGTGATCTTGGTCCGGTAGATACTATGCTTCCTGGGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAGgtacgtatctttcttgtctattcagacaaagccaatttatatagaaactaaccttggttgctttatgaatgtgtgtttcag

- - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - -  TGGAGA