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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTCATCGTCTTCTCTAGTCCTGCGAAAACCCTAGTTTTTTGCTCTCTCGAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacacaagctctgcttttgatctatttctctattctcatcatattctccggtgtctcagaatgttgtttcgttgaattttgaccattttcttcttccttcttgctctcag

Basic information

species Arabidopsis thaliana
transcript AT5G52650.1
intron # 1
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|47830180|gb|CK119864.1|CK119864
EST:     GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
EST: gi|152037961|gb|BP804142.2|BP804142
EST:     GACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: GACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
EST: gi|47830738|gb|CK120422.1|CK120422
EST:     CTCGAGCAAGATCTCCTACCGATACAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: CTCGAGCAAGATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
EST: gi|152033829|gb|BP817117.2|BP817117
EST:     AAGCTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: AAG-TTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
EST: gi|152034920|gb|BP840005.2|BP840005
EST:     GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATAAAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
EST: gi|47828157|gb|CK117841.1|CK117841
EST:     GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
EST: gi|47831024|gb|CK120708.1|CK120708
EST:     GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: GAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
EST: gi|164108574|gb|EL994714.1|EL994714
EST:     GATCTCCTACCGATACAATG                         ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG
genomic: GATCTCCTACCGATACAATGgtaacacaca ... ttgctctcagATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGTCATCGTCTTCTCTAGTCCTGCGAAAACCCTAGTTTTTTGCTCTCTCGAAGTTCCGTGCGACTCTCTGCTCGAGCAAGATCTCCTACCGATACAATGgtaacacacaagctctgcttttgatctatttctctattctcatcatattctccggtgtctcagaatgttgtttcgttgaattttgaccattttcttcttccttcttgctctcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA