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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcagctctagttttaccatatttcttgaacttccatgattcaacaagtgtcttctaaccccctttggttacataacttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTAGTAGATCCGAGGCTAGGGAAAAACTTCATCCCAGGAGAGATGTTCAGAA

Basic information

species Arabidopsis thaliana
transcript AT5G38560.1
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|116453654|gb|EG496246.1|EG496246
EST:     AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGG                         GCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
genomic: AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcag ... cttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
EST: gi|116453643|gb|EG496235.1|EG496235
EST:     TACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGG                         GCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
genomic: TACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcag ... cttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
EST: gi|116453662|gb|EG496254.1|EG496254
EST:     AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGG                         GCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
genomic: AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcag ... cttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccatgattcaacaagtgtcttctaaccccctttggttacataacttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTAGTAGATCCGAGGCTAGGGAAAAACTTCATCCCAGGAGAGATGTTCAGAA
                                             cttttatt  CT-rich tract
                                     ttacataacttttatt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgcagctctagttttaccatatttcttgaacttccatgattcaacaagtgtcttctaaccccctttggttacataacttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTAGTAGATCCGAGGCTAGGGAAAAACTTCATCCCAGGAGAGATGTTCAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG