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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagaaatcactcctccatgcgtttatggttatcttcttgtgactttaccatttcttttattcattgctctctgtgtttgcagAATTTGGAAGGCAGAGCAATTAAAGTGAACGTGGCTGAGGAACGAACAAGGCGTTGATTTTGATAGCTCAGTGAGTGTTAATATTGTGAGTTATGATTAG

Basic information

species Arabidopsis thaliana
transcript AT5G50250.1
intron # 3
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|125248700|gb|EL262785.1|EL262785
EST:     CTCTTGATGGACAG                         AATTTGGAAGGCAGAGCAATTAAAGTGAACGTGGCTGAGGAACGAACAAGG
genomic: CTCTTGATGGACAGgtaaaagaaa ... gtgtttgcagAATTTGGAAGGCAGAGCAATTAAAGTGAACGTGGCTGAGGAACGAACAAGG
EST: gi|163970080|gb|ES166158.1|ES166158
EST:     GAAGTTAACGTTGCCATTGCTGCTCTTGATGGACAG                         AATTTGGAAGGCAGAGCAATTAAAGTGAACGTGGC
genomic: GAAGTTAACGTTGCCATTGCTGCTCTTGATGGACAGgtaaaagaaa ... gtgtttgcagAATTTGGAAGGCAGAGCAATTAAAGTGAACGTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatcttcttgtgactttaccatttcttttattcattgctctctgtgtttgcagAATTTGGAAGGCAGAGCAATTAAAGTGAACGTGGCTGAGGAACGAACAAGGCGTTGATTTTGATAGCTCAGTGAGTGTTAATATTGTGAGTTATGATTAG
                                       ctctctgt  CT-rich tract
                      atttcttttattcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaagaaatcactcctccatgcgtttatggttatcttcttgtgactttaccatttcttttattcattgctctctgtgtttgcagAATTTGGAAGGCAGAGCAATTAAAGTGAACGTGGCTGAGGAACGAACAAGGCGTTGATTTTGATAGCTCAGTGAGTGTTAATATTGTGAGTTATGATTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA