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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttcttcttaaatttgttcttagatctctgttttcttcagcttctgtgagtaaattgattcatttttaggcttatgccgatgaacattgtgatttttgaactagtttaggttaactagttatggtagcaattatgatgtttggcttagaaggtgaacattgtgttgattatcatatgttctatgatttttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G52650.1
intron # 2
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:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|152037961|gb|BP804142.2|BP804142
EST:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAGGAGTTGGCTTGGGGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|47830738|gb|CK120422.1|CK120422
EST:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|152033829|gb|BP817117.2|BP817117
EST:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|152034920|gb|BP840005.2|BP840005
EST:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|47828157|gb|CK117841.1|CK117841
EST:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|47831024|gb|CK120708.1|CK120708
EST:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|125305973|gb|EL320058.1|EL320058
EST:     CTGCAAGTACCTCTTCAAAG                         AAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
genomic: CTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCTTGCTAAGCATCCGTTGA
EST: gi|164108574|gb|EL994714.1|EL994714
EST:     ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAG                         AAAGGAGTTTGCTTTGCGAAGAAGGATTTCAATCT
genomic: ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttctt ... atttttgcagAA-GGAGTTTGCTTTGCGAAGAAGGATTTCAATCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTATCTCAGAGGCTAACCGCAAAGAAATCTGCAAGTACCTCTTCAAAGgttcgttcttcttaaatttgttcttagatctctgttttcttcagcttctgtgagtaaattgattcatttttaggcttatgccgatgaacattgtgatttttgaactagtttaggttaactagttatggtagcaattatgatgtttggcttagaaggtgaacattgtgttgattatcatatgttctatgatttttgcag

- - - - - - - - -  GCAAAG
- - - - - - - - - -  AAAGAA
- - - - - - - - - - - AAGAAA