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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttcagaatacatttgtttgaaactatccaggaacagaaattgagacctatatgattatatgaatctctgattgagtcttgttgttgttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATCCCAATTATTAATGAGAGGACACTTCCAAAGTTCTTGGAATCTGCTCGTA

Basic information

species Arabidopsis thaliana
transcript AT2G35390.3
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|116379964|gb|EG422556.1|EG422556
EST:     CGTCAGAAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CGTCAG-AACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379575|gb|EG422167.1|EG422167
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379978|gb|EG422570.1|EG422570
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379953|gb|EG422545.1|EG422545
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         ACATGTGATATGCCGGAGTCATTGA-TGTGGGAAACGGG
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGG
EST: gi|116379961|gb|EG422553.1|EG422553
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|86073110|gb|DR368867.1|DR368867
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379968|gb|EG422560.1|EG422560
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379973|gb|EG422565.1|EG422565
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379979|gb|EG422571.1|EG422571
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379976|gb|EG422568.1|EG422568
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379963|gb|EG422555.1|EG422555
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379975|gb|EG422567.1|EG422567
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379965|gb|EG422557.1|EG422557
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379954|gb|EG422546.1|EG422546
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGCGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379955|gb|EG422547.1|EG422547
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379969|gb|EG422561.1|EG422561
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379981|gb|EG422573.1|EG422573
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
EST: gi|116379958|gb|EG422550.1|EG422550
EST:     CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTT                         AAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC
genomic: CCGTCAGAACCTCTCAGTTTCGCTCCCGAAACTCTGTCTTCGCTTGTGTTgtaagcggtg ... ttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagacctatatgattatatgaatctctgattgagtcttgttgttgttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATCCCAATTATTAATGAGAGGACACTTCCAAAGTTCTTGGAATCTGCTCGTA
                       ctctgat  putative branch site (score: 4)
      tatatgattatatgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcttcagaatacatttgtttgaaactatccaggaacagaaattgagacctatatgattatatgaatctctgattgagtcttgttgttgttgttgctagAAATGTGATATGCCGGAGTCATTGAATGTGGGAAACGGGAATCCAAGTATCCCAATTATTAATGAGAGGACACTTCCAAAGTTCTTGGAATCTGCTCGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA