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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcacaattgtttttataatctctatcgatttcgtttgaatgaattgaacctaagttttggtgggattaatgtgtagGGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTGTCACTCTGATTTGCATATGGTCAAGAACGAGTGGGGAATGTCTACTTAT

Basic information

species Arabidopsis thaliana
transcript AT4G37990.1
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|116448075|gb|EG490667.1|EG490667
EST:     GCCGCGAAAGACAATTCCGGAGTTCTCTCGCCTTTCAGTTTCACTAGAAG                         GGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTG
genomic: GCCGCGAAAGACAATTCCGGAGTTCTCTCGCCTTTCAGTTTCACTAGAAGgtttcacaat ... taatgtgtagGGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTG
EST: gi|116448074|gb|EG490666.1|EG490666
EST:     GCCGCGAAAGACAATTCCGGAGTTCTCTCGCCTTTCAGTTTCACTAGAAG                         GGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTG
genomic: GCCGCGAAAGACAATTCCGGAGTTCTCTCGCCTTTCAGTTTCACTAGAAGgtttcacaat ... taatgtgtagGGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTG
EST: gi|116464132|gb|EG506724.1|EG506724
EST:     GCCGCGAAAGACAATTCCGGAGTTCTCTCGCCTTTCAGTTTCACTAGAAG                         GGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTG
genomic: GCCGCGAAAGACAATTCCGGAGTTCTCTCGCCTTTCAGTTTCACTAGAAGgtttcacaat ... taatgtgtagGGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatcgatttcgtttgaatgaattgaacctaagttttggtgggattaatgtgtagGGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTGTCACTCTGATTTGCATATGGTCAAGAACGAGTGGGGAATGTCTACTTAT
                                          gattaat  putative branch site (score: 3)
                aatgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcacaattgtttttataatctctatcgatttcgtttgaatgaattgaacctaagttttggtgggattaatgtgtagGGAAACAGGAGAAAAGGATGTGAGGTTCAAAGTGTTATTTTGTGGAATTTGTCACTCTGATTTGCATATGGTCAAGAACGAGTGGGGAATGTCTACTTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC