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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttggtattggtagaatttttccagctcttaaataagtattgattgtgaatttgtaaagaggttacactttgtgatgaattgcttgttgttattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCAGACAGTTCTGTGCCAGCCCACCGGTGGTAAAGCGAGGCTACAAGAGGGA

Basic information

species Arabidopsis thaliana
transcript AT5G47930.1
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|125288606|gb|EL302691.1|EL302691
EST:     GGGAGTGCTTCAACAT                         AACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACT
genomic: GGGA-TGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACT
EST: gi|164154592|gb|ES142991.1|ES142991
EST:     TGTCAGGGATGCTTCAACAT                         AACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA
genomic: TGTCAGGGATGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA
EST: gi|222358183|gb|GH717943.1|GH717943
EST:     GATGTTAAGTGTCAGGGATGCTTCAACAT                         AACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA
genomic: GATGTTAAGTGTCAGGGATGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA
EST: gi|47831821|gb|CK121505.1|CK121505
EST:     GATGTTAAGTGTCAGGGATGCTTCAACAT                         AACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA
genomic: GATGTTAAGTGTCAGGGATGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA
EST: gi|124905441|gb|EH979521.1|EH979521
EST:     GATGTTAAGTGTCAGGGATGCTTCAACAT                         AACCACTGTGTTCAG
genomic: GATGTTAAGTGTCAGGGATGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAG
EST: gi|124945164|gb|EL021199.1|EL021199
EST:     GGATGTTAAGTGTCAGGGATGCTTCAACAT                         AACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTA
genomic: GGATGTTAAGTGTCAGGGATGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTA
EST: gi|164158903|gb|ES102498.1|ES102498
EST:     GATGTTAAGTGTCAGGGATGCTTCAACAT                         AACCACTGTGTTCAGCCATTCTCA
genomic: GATGTTAAGTGTCAGGGATGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAGCCATTCTCA
EST: gi|125256996|gb|EL271081.1|EL271081
EST:     GGGATGCTTCAACAT                         AACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA
genomic: GGGATGCTTCAACATgtgagtttac ... tattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaatttgtaaagaggttacactttgtgatgaattgcttgttgttattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCAGACAGTTCTGTGCCAGCCCACCGGTGGTAAAGCGAGGCTACAAGAGGGA
                                            ttatttt  CT-rich tract
                                         ttgttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttggtattggtagaatttttccagctcttaaataagtattgattgtgaatttgtaaagaggttacactttgtgatgaattgcttgttgttattttgcagAACCACTGTGTTCAGCCATTCTCAAACTGTTGTGGTATGTGGAAACTGTCAGACAGTTCTGTGCCAGCCCACCGGTGGTAAAGCGAGGCTACAAGAGGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - aaataag