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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtctccaacaagaaaattcatatcgttactaataagccagttttgattgaaagctctcatctcatctatctaaatttgaatttgaatagGATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATCTTCCACACCTACTTTGGAGTTGCGG

Basic information

species Arabidopsis thaliana
transcript AT5G12210.2
intron # 8
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|19741127|gb|AU226480.1|AU226480
EST:     TCAAGTTCATTCT-GACTGTCA-                         GATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATC
genomic: TCAAGTTCATTCTGGACTGTCAGgttcgtctcc ... atttgaatagGATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATC
EST: gi|86075290|gb|DR371047.1|DR371047
EST:     TTCACTGGATCGACAAAGCAAAGCTTGTCAAGTTCATTCTGGACTGTCAG                         GATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATC
genomic: TTCACTGGATCGACAAAGCAAAGCTTGTCAAGTTCATTCTGGACTGTCAGgttcgtctcc ... atttgaatagGATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATC
EST: gi|125090912|gb|EL148735.1|EL148735
EST:     TTCACTGGATCGACAAAGCAAAGCTTGTCAAGTTCATTCTGGACTGTCAG                         GATTTGGACAACGGAGGCATCTC
genomic: TTCACTGGATCGACAAAGCAAAGCTTGTCAAGTTCATTCTGGACTGTCAGgttcgtctcc ... atttgaatagGATTTGGACAACGGAGGCATCTC
EST: gi|125298477|gb|EL312562.1|EL312562
EST:     CAAAGCTTGTCAAGTTCATTCTGGACTGTCAG                         GATTTGGACAACGGAGGCATCTCAGACCGACCCG
genomic: CAAAGCTTGTCAAGTTCATTCTGGACTGTCAGgttcgtctcc ... atttgaatagGATTTGGACAACGGAGGCATCTCAGACCGACCCG
EST: gi|124798451|gb|EH888130.1|EH888130
EST:     CAAAGCAAAGCTTGTCAAGTTCATTCTGGACTGTCAG                         GATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATC
genomic: CAAAGCAAAGCTTGTCAAGTTCATTCTGGACTGTCAGgttcgtctcc ... atttgaatagGATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccagttttgattgaaagctctcatctcatctatctaaatttgaatttgaatagGATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATCTTCCACACCTACTTTGGAGTTGCGG
                                 atctaaa  putative branch site (score: 3)
                                tatctaaatttgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgtctccaacaagaaaattcatatcgttactaataagccagttttgattgaaagctctcatctcatctatctaaatttgaatttgaatagGATTTGGACAACGGAGGCATCTCAGACCGACCCGAGGATGCTGTTGATATCTTCCACACCTACTTTGGAGTTGCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG