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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACATCGATAAACACAGGTCCACGAGGTGTGACACGCCTTGTCCAAGGTGTTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAGgtggctgaaattatctttttgcttatgatgtcaaactatctttgattgctaactactctctcactcgctgcag

Basic information

species Arabidopsis thaliana
transcript AT5G05200.1
intron # 3
splice site 5'
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|124893146|gb|EH972048.1|EH972048
EST:     TTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAG                         TCTACAAGCGCGTCTGGCGGATTACCAAG
genomic: TTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAGgtggctgaaa ... ctcgctgcagTCTACAAGCGCGTCTGGTGGATTACCAAG
EST: gi|125154371|gb|EL185025.1|EL185025
EST:     TCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGACTAAATGATTTATCTAAG                         TCTACAAGCGCGTCTGGTGGATTACCAAG
genomic: TCAAGCCTTTGTAGGGGTTGGAGGAGAGTGG-CTAAATGATTTATCTAAGgtggctgaaa ... ctcgctgcagTCTACAAGCGCGTCTGGTGGATTACCAAG
EST: gi|164048150|gb|ES104028.1|ES104028
EST:     TTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAG                         TCTACGAGCGCGTCTGGTGGATTACCAAGTGAATTGCAGCTTGGTCTACTG
genomic: TTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAGgtggctgaaa ... ctcgctgcagTCTACAAGCGCGTCTGGTGGATTACCAAGTGAATTGCAGCTTGGTCTACTG
EST: gi|47832248|gb|CK121932.1|CK121932
EST:     TTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAG                         TCTACAAGCGCGTCTGGTGGATTACCAAGTGAATTGCAGCTTGGTCTACTG
genomic: TTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAGgtggctgaaa ... ctcgctgcagTCTACAAGCGCGTCTGGTGGATTACCAAGTGAATTGCAGCTTGGTCTACTG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACATCGATAAACACAGGTCCACGAGGTGTGACACGCCTTGTCCAAGGTGTTCAAGCCTTTGTAGGGGTTGGAGGAGAGTGGCTAAATGATTTATCTAAGgtggctgaaattatctttttgcttatgatgtcaaactatctttgattgctaactactctctcactcgctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA