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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgagaagctttgatatcttatgatgccaactttgaatatatatcaatgttctgatgatttttatgacatagGAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATCAACAAGGCCTTTGATTACATGCTGAAGGGAGAGAGTATTCGTTGCATCA

Basic information

species Arabidopsis thaliana
transcript AT1G77120.1
intron # 6
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|116397678|gb|EG440270.1|EG440270
EST:     ACAAACCCAAAACTGACATTCCCGGGGTTGTGGAAAAGTACATGAACAAG                         GAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATC
genomic: ACAAACCCAAAACTGACATTCCCGGGGTTGTGGAAAAGTACATGAACAAGgtaatgagaa ... tatgacatagGAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATC
EST: gi|116397680|gb|EG440272.1|EG440272
EST:     ACAAACCCAAAACTGACATTCCCGGGGTTGTGGAAAAGTACATGAACAAG                         GAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATC
genomic: ACAAACCCAAAACTGACATTCCCGGGGTTGTGGAAAAGTACATGAACAAGgtaatgagaa ... tatgacatagGAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATC
EST: gi|116470066|gb|EG512658.1|EG512658
EST:     ACAAACCCAAAACTGACATTCCCGGGGTTGTGGAAAAGTACATGAACAAG                         GAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATC
genomic: ACAAACCCAAAACTGACATTCCCGGGGTTGTGGAAAAGTACATGAACAAGgtaatgagaa ... tatgacatagGAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttatgatgccaactttgaatatatatcaatgttctgatgatttttatgacatagGAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATCAACAAGGCCTTTGATTACATGCTGAAGGGAGAGAGTATTCGTTGCATCA
                                ttctgat  putative branch site (score: 3)
                                         tttttat  putative PPT
              tttgaatatatatcaa  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatgagaagctttgatatcttatgatgccaactttgaatatatatcaatgttctgatgatttttatgacatagGAGCTGGAGCTTGAGAAATTCATCACTCACACAGTGCCATTCTCGGAAATCAACAAGGCCTTTGATTACATGCTGAAGGGAGAGAGTATTCGTTGCATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG