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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaaagtttacactttttatctcttctatgattgtcctcaagacctttttttcattgttgacgttttctttgtgtggtttgggtgttatagGTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG

Basic information

species Arabidopsis thaliana
transcript AT1G32790.2
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|164211474|gb|ES162750.1|ES162750
EST:     GAGAAGATGTTATCCGTAGAACCGTCTACGTCTCTGATCTCGATCAACAG                         GTCACTGAAGAGCAGCTTGC
genomic: GAGAAGATGTTATCCGTAGAACCGTCTACGTCTCTGATCTCGATCAACAGgttgaaagtt ... ggtgttatagGTCACTGAAGAGCAGCTTGC
EST: gi|86051671|gb|DR347426.1|DR347426
EST:     GAGAAGATGTTATCCGTAGAACCGTCTACGTCTCTGATCTCGATCAACAG                         GTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG
genomic: GAGAAGATGTTATCCGTAGAACCGTCTACGTCTCTGATCTCGATCAACAGgttgaaagtt ... ggtgttatagGTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG
EST: gi|164232158|gb|EL968027.1|EL968027
EST:     GTCTACGTCTCTGATCTCGATCAACAG                         GTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG
genomic: GTCTACGTCTCTGATCTCGATCAACAGgttgaaagtt ... ggtgttatagGTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG
EST: gi|86051683|gb|DR347438.1|DR347438
EST:     ANNANNNTGT-ATCCGTAGAACCGTCTACGTCTCTGATCTCGATCAACAG                         -TCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG
genomic: AGAAGA-TGTTATCCGTAGAACCGTCTACGTCTCTGATCTCGATCAACAGgttgaaagtt ... ggtgttatagGTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaagacctttttttcattgttgacgttttctttgtgtggtttgggtgttatagGTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG
                   tgttgac  putative branch site (score: 3)
         tttttttcattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgaaagtttacactttttatctcttctatgattgtcctcaagacctttttttcattgttgacgttttctttgtgtggtttgggtgttatagGTCACTGAAGAGCAGCTTGCTGGTTTGTTTGTGAGCTGTGGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT