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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaaccctaattctctcttttatactctgtttctgtggatctgaaggtttttgagagacgaatgttttgctctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGAGACTGGAGCTGGGAAGCATGTTCCTAGGGCTGTCTTCGTTGATCTCGAG

Basic information

species Arabidopsis thaliana
transcript AT5G19780.1
intron # 1
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|116429753|gb|EG472345.1|EG472345
EST:     GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAG                         TGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
genomic: GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAGgtataaaccc ... tctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
EST: gi|116402882|gb|EG445474.1|EG445474
EST:     GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAG                         TGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
genomic: GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAGgtataaaccc ... tctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
EST: gi|152038420|gb|AV822431.2|AV822431
EST:     GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAG                         TGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
genomic: GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAGgtataaaccc ... tctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
EST: gi|86072696|gb|DR368453.1|DR368453
EST:     GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAG                         TGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
genomic: GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAGgtataaaccc ... tctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
EST: gi|47828916|gb|CK118600.1|CK118600
EST:     GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAG                         TGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA
genomic: GAGCTTTACTGTCTCGAACATGGAATCCAGCCCGACGGAATGATGCCGAGgtataaaccc ... tctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgtttctgtggatctgaaggtttttgagagacgaatgttttgctctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGAGACTGGAGCTGGGAAGCATGTTCCTAGGGCTGTCTTCGTTGATCTCGAG
                                       ttttgctct  CT-rich tract
 aatgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataaaccctaattctctcttttatactctgtttctgtggatctgaaggtttttgagagacgaatgttttgctctgttgcagTGATACTACAGTTGGTGTTGCACACGATGCGTTCAATACTTTCTTTAGCGAGACTGGAGCTGGGAAGCATGTTCCTAGGGCTGTCTTCGTTGATCTCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT