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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtggaaaaaaacacactaagatcacttatttttacagatataatgtgtaatttttttgttaagttaattaactttaatgtcatatacatacataatcagTTCACTTTGGCTCCGGACGAGTACATAACGGCCCTTTCTGCTTACGGCAAATCGTTGAGTACGCAAGAAGTTATTACGGCGTTGACTTTCACAACCAACA

Basic information

species Arabidopsis thaliana
transcript AT3G16460.1
intron # 2
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|152038077|gb|BP807305.2|BP807305
EST:     CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAG                         C
genomic: CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAGgtttgtggaa ... acataatcag-
EST: gi|152038077|gb|BP807305.2|BP807305
EST:     CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAG                         C
genomic: CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAGgtttgtggaa ... acataatcag-
EST: gi|86064962|gb|DR360719.1|DR360719
EST:     CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAG                         TTCACTTTGGCTCCGGACGAGTACATAACGGCCCTTTCTGCTTACGGCAAA
genomic: CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAGgtttgtggaa ... acataatcagTTCACTTTGGCTCCGGACGAGTACATAACGGCCCTTTCTGCTTACGGCAAA
EST: gi|86064960|gb|DR360717.1|DR360717
EST:     CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAG                         TTCACTTTGGCTCCGGACGAGTACATAACGGCCCTTTCTGCTTACGGCAAA
genomic: CCGCTCTTCAATCCCAGCTTCGCGGCTCCGTTGGTCCCAAATCTGCTGAGgtttgtggaa ... acataatcagTTCACTTTGGCTCCGGACGAGTACATAACGGCCCTTTCTGCTTACGGCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtaatttttttgttaagttaattaactttaatgtcatatacatacataatcagTTCACTTTGGCTCCGGACGAGTACATAACGGCCCTTTCTGCTTACGGCAAATCGTTGAGTACGCAAGAAGTTATTACGGCGTTGACTTTCACAACCAACA
     atttttttgttaagtt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtggaaaaaaacacactaagatcacttatttttacagatataatgtgtaatttttttgttaagttaattaactttaatgtcatatacatacataatcagTTCACTTTGGCTCCGGACGAGTACATAACGGCCCTTTCTGCTTACGGCAAATCGTTGAGTACGCAAGAAGTTATTACGGCGTTGACTTTCACAACCAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT