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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtttctattttctattgttctggattcaaatattgttagaattgaatcgttgatcgagagtgaattgaatttgatcggcgattataaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGATACTTCTTGCAAGCATTGCAACAGCTTAGCGATGAGTGGACACTAATGCG

Basic information

species Arabidopsis thaliana
transcript AT4G36760.1
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|116482889|gb|EG525481.1|EG525481
EST:     TACACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAG                         GTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
genomic: TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAGgtctgtttct ... aaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
EST: gi|116409976|gb|EG452568.1|EG452568
EST:     TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAG                         GTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
genomic: TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAGgtctgtttct ... aaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
EST: gi|86070599|gb|DR366356.1|DR366356
EST:     TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAG                         GTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
genomic: TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAGgtctgtttct ... aaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
EST: gi|86070598|gb|DR366355.1|DR366355
EST:     TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAG                         GTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
genomic: TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAGgtctgtttct ... aaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
EST: gi|86070600|gb|DR366357.1|DR366357
EST:     TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAG                         GTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
genomic: TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAGgtctgtttct ... aaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
EST: gi|86070602|gb|DR366359.1|DR366359
EST:     TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAG                         GTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT
genomic: TGCACGAGACAAACGCCGTGAGTTCGTGTCTGGATTCAGTGGAAGTGCAGgtctgtttct ... aaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgaatcgttgatcgagagtgaattgaatttgatcggcgattataaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGATACTTCTTGCAAGCATTGCAACAGCTTAGCGATGAGTGGACACTAATGCG
                            atttgat  putative branch site (score: 5)
                                        attataaatatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgtttctattttctattgttctggattcaaatattgttagaattgaatcgttgatcgagagtgaattgaatttgatcggcgattataaatatatagGTTTGGCACTTATCACGAAGAAGGAAGCAAGACTTTGGACAGATGGTCGATACTTCTTGCAAGCATTGCAACAGCTTAGCGATGAGTGGACACTAATGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA