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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctcttcagatctgaccaatcgtcatcggaaatgaaagagctaatcctcaattgatccgtatttgtggaatcggatcggatatattgatgtattgtgtctcagtattgattgttggatcgctggttgtgaaaccctaattagtaaatgtattgactcattttgcagAGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACAGGCGGTAATGTCTTTCTCTTTCGATCATATCAATGTTAAATTTCGATTTGGAAGCTGAATT

Basic information

species Arabidopsis thaliana
transcript AT5G59613.1
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|164232927|gb|ES129177.1|ES129177
EST:     TCATCACCAAGCTCACCGCTGGACTCACTG                         AGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACAGG
genomic: TCATCACCAAGCTCACCGCTGGACTCACTGgtaagtctct ... cattttgcagAGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACAGG
EST: gi|124758345|gb|EH848475.1|EH848475
EST:     ATTCGCCGTTACCGGCGTTCTCATCACCAAGCTCACCGCTGGACTCACTG                         AGGAAGACGCCAAGAA
genomic: ATTCGCCGTTACCGGCGTTCTCATCACCAAGCTCACCGCTGGACTCACTGgtaagtctct ... cattttgcagAGGAAGACGCCAAGAA
EST: gi|163992919|gb|ES148712.1|ES148712
EST:     ATTCGCCGTTACCGGCGTTCTCATCGCCAAGCTCACCGCTGGACTCACTG                         AGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACA
genomic: ATTCGCCGTTACCGGCGTTCTCATCACCAAGCTCACCGCTGGACTCACTGgtaagtctct ... cattttgcagAGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACA
EST: gi|164048759|gb|ES067815.1|ES067815
EST:     GCTCACCGCTGGACTCACTG                         AGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACAGGCGGT
genomic: GCTCACCGCTGGACTCACTGgtaagtctct ... cattttgcagAGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACAGGCGGT
EST: gi|124855600|gb|EH940037.1|EH940037
EST:     ATTCGCCGTTACCGGCGTTCTCATCACCAAGCTCACCGCTGGACTCACTG                         AGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAA
genomic: ATTCGCCGTTACCGGCGTTCTCATCACCAAGCTCACCGCTGGACTCACTGgtaagtctct ... cattttgcagAGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAA
EST: gi|124940328|gb|EL016789.1|EL016789
EST:     TCGCCGTTACCGGCGTTCTCATCACCAAGCTCACCGCTAGGAACTCACTG                         AGGAAGACGCCAAGAACTCCA
genomic: TCGCCGTTACCGGCGTTCTCATCACCAAGCTCACCGCT-GGA-CTCACTGgtaagtctct ... cattttgcagAGGAAGACGCCAAGAACTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttggatcgctggttgtgaaaccctaattagtaaatgtattgactcattttgcagAGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACAGGCGGTAATGTCTTTCTCTTTCGATCATATCAATGTTAAATTTCGATTTGGAAGCTGAATT
                                     tattgac  putative branch site (score: 2)
                                           ctcatttt  CT-rich tract
                        taattagtaaatgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtctcttcagatctgaccaatcgtcatcggaaatgaaagagctaatcctcaattgatccgtatttgtggaatcggatcggatatattgatgtattgtgtctcagtattgattgttggatcgctggttgtgaaaccctaattagtaaatgtattgactcattttgcagAGGAAGACGCCAAGAACTCCAAGTTTGTCCAACAACACAGGCGGTAATGTCTTTCTCTTTCGATCATATCAATGTTAAATTTCGATTTGGAAGCTGAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA