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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaccatatcatcttgatcaaaaaggtttgtatcctgtttggaacctgaaacatgttttgttctgatttactagGAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGATCTCTACAAAGAGCTGGATCTTGAG

Basic information

species Arabidopsis thaliana
transcript AT5G47770.1
intron # 10
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|125325581|gb|EL339661.1|EL339661
EST:     TGGTTAAGGCATTAGAGCGCTGCAGCGAAGAACAAACTAAGATATTATAT                         GAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAG
genomic: TGGTTAAGGCATTAGAGCGCTGCAGCGAAGAACAAACTAAGATATTATATgtaagaacca ... gatttactagGAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAG
EST: gi|124868583|gb|EH953020.1|EH953020
EST:     TGGTTAAGGCATTAGAGCGCTGCAGCGAAGAACAAACTAAGATATTATAT                         GAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGA
genomic: TGGTTAAGGCATTAGAGCGCTGCAGCGAAGAACAAACTAAGATATTATATgtaagaacca ... gatttactagGAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGA
EST: gi|125217460|gb|EL231543.1|EL231543
EST:     AGAGCGCTGCAGCGAAGAACAAACTAAGATATTATAT                         GAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGATCTC
genomic: AGAGCGCTGCAGCGAAGAACAAACTAAGATATTATATgtaagaacca ... gatttactagGAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGATCTC
EST: gi|124980609|gb|EL053549.1|EL053549
EST:     TGGTTAAGGCATTAGAGCGCTGCAGCGAAGAACAAACTAAGATATTATAT                         GAGAACTATGGTAAACCCGACCCATCGAACG
genomic: TGGTTAAGGCATTAGAGCGCTGCAGCGAAGAACAAACTAAGATATTATATgtaagaacca ... gatttactagGAGAACTATGGTAAACCCGACCCATCGAACG
EST: gi|164066487|gb|EL992733.1|EL992733
EST:     GCGAAGAACAAACTAAGATATTATAT                         GAGAACTATGGTAAAACCGACCCATCGAACGTTGCTAAAGTGAAGGATCTC
genomic: GCGAAGAACAAACTAAGATATTATATgtaagaacca ... gatttactagGAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGATCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaggtttgtatcctgtttggaacctgaaacatgttttgttctgatttactagGAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGATCTCTACAAAGAGCTGGATCTTGAG
                                         ttctgat  putative branch site (score: 3)
                                              atttacta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaaccatatcatcttgatcaaaaaggtttgtatcctgtttggaacctgaaacatgttttgttctgatttactagGAGAACTATGGTAAACCCGACCCATCGAACGTTGCTAAAGTGAAGGATCTCTACAAAGAGCTGGATCTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA