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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTTGCAATCGGAGATGGAGATCGAATCCGTCGCAGCTGGTTCTTGTTCCAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttcatgttcattttgttgtcttgtgttcttcagtcttcgattctcgtcttcactatatgcgctaaaagcttattctctgtttggtgtaaatgagcag

Basic information

species Arabidopsis thaliana
transcript AT3G20290.2
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|116430168|gb|EG472760.1|EG472760
EST:     CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAG                         ACGGCGATGGCCGTATTACTGGTAACGATGCGATCAAGTTCTTCACTATGT
genomic: CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttc ... aaatgagcagACGGCGATGGCCGTATTACTGGTAACGATGCGATCAAGTTCTTCACTATGT
EST: gi|164223093|gb|ES160636.1|ES160636
EST:     CAGGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAG                         ACGGCGATGGCCGTATTACTGGTAACGA
genomic: CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttc ... aaatgagcagACGGCGATGGCCGTATTACTGGTAACGA
EST: gi|164051018|gb|ES041259.1|ES041259
EST:     CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAG                         ACGGCGATGGCCGTATTACTGGTAACGATGCGATC
genomic: CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttc ... aaatgagcagACGGCGATGGCCGTATTACTGGTAACGATGCGATC
EST: gi|124872878|gb|EH954523.1|EH954523
EST:     CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAG                         ACGGCGATGGCCGTATTACTGGTAACGATGCGATCAAGTTCTTCACTA
genomic: CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttc ... aaatgagcagACGGCGATGGCCGTATTACTGGTAACGATGCGATCAAGTTCTTCACTA
EST: gi|164033541|gb|ES131209.1|ES131209
EST:     CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAG                         ACGGCGATGGCCGTATTACTGGTAACGATGCGATCAAG
genomic: CAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttc ... aaatgagcagACGGCGATGGCCGTATTACTGGTAACGATGCGATCAAG
EST: gi|163985113|gb|ES019224.1|ES019224
EST:     AGGAGAATCAAATGATACTAACAAGGAATGGTTCGAATTCTCCGATTCAG                         ACGGCGATGGCCGTATTACTGGTAACGATGCGATC
genomic: AGGAGAATCAAATGAT-CT-ACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttc ... aaatgagcagACGGCGATGGCCGTATTACTGGTAACGATGCGATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTTGCAATCGGAGATGGAGATCGAATCCGTCGCAGCTGGTTCTTGTTCCAAGGAGAATCAAATGATCTACAAGGAATGGTTCGAATTCTCCGATTCAGgtctcgtttcatgttcattttgttgtcttgtgttcttcagtcttcgattctcgtcttcactatatgcgctaaaagcttattctctgtttggtgtaaatgagcag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA