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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttttcactatagtttaatttacctatggtaatgaaaaataaattattcattttaaaataaaaatctgaactgatatagctaattgttgctttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCAAGATTGCTGTAGGAGGCAGTGATTCAGTGCGAGCTCATTCAAAAGATCA

Basic information

species Arabidopsis thaliana
transcript AT1G36622.1
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|116475704|gb|EG518296.1|EG518296
EST:     ATTACCAAATAGAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472439|gb|EG515031.1|EG515031
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTTTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472437|gb|EG515029.1|EG515029
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472447|gb|EG515039.1|EG515039
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472446|gb|EG515038.1|EG515038
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTTTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472430|gb|EG515022.1|EG515022
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTTTTCAAGGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472442|gb|EG515034.1|EG515034
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116475711|gb|EG518303.1|EG518303
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAT                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116475718|gb|EG518310.1|EG518310
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116475720|gb|EG518312.1|EG518312
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116475700|gb|EG518292.1|EG518292
EST:     GGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: GGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116475697|gb|EG518289.1|EG518289
EST:     ACTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116475709|gb|EG518301.1|EG518301
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472429|gb|EG515021.1|EG515021
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472440|gb|EG515032.1|EG515032
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116475713|gb|EG518305.1|EG518305
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAGCGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
EST: gi|116472445|gb|EG515037.1|EG515037
EST:     ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAA                         GGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA
genomic: ATTACCAAATACAACACTGGCCCGAGTACAATATGGATCTCCAGTTTCAAgtgagtattt ... tttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcattttaaaataaaaatctgaactgatatagctaattgttgctttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCAAGATTGCTGTAGGAGGCAGTGATTCAGTGCGAGCTCATTCAAAAGATCA
                                agctaat  putative branch site (score: 3)
                                      ttgttgctttcttc  CT-rich tract
     ttttaaaataaaaatc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttttcactatagtttaatttacctatggtaatgaaaaataaattattcattttaaaataaaaatctgaactgatatagctaattgttgctttcttcaagGGAAGGAAATAGGAAAAGGGGTTTGGGATCAAAAGGTCTTCAACGAGATCAAGATTGCTGTAGGAGGCAGTGATTCAGTGCGAGCTCATTCAAAAGATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa