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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctaactctcttgttcttcatattctattataaaatcatatcactcttttatggcttacttcatgtttgttttctgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATATTTGACTCCTTTGGAAGAAACTTCTCTCATACTCTCGGTCATGCAGTCA

Basic information

species Arabidopsis thaliana
transcript AT3G63080.1
intron # 5
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|164206645|gb|ES025507.1|ES025507
EST:     GTCAAGTAATTGATCGTTATGGCACAACTGTTTCACCTCTATCCATCCAG                         AAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAG
genomic: GTCAAGTCATTGATCGTTATGGCACAACTGTTTCACCTCTATCCATCCAGgtctctaact ... tgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAG
EST: gi|19742267|gb|AU227620.1|AU227620
EST:     GTCAAGTCATTGATCGTTATGGCACAACTGTTTCACCTCTATCCATCCAG                         AAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA
genomic: GTCAAGTCATTGATCGTTATGGCACAACTGTTTCACCTCTATCCATCCAGgtctctaact ... tgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA
EST: gi|19875832|gb|AU236663.1|AU236663
EST:     GTCAAGTCATTGATCGTTATGGCACAACTGTTTCACCTCTATCCATNCAG                         AAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA
genomic: GTCAAGTCATTGATCGTTATGGCACAACTGTTTCACCTCTATCCATCCAGgtctctaact ... tgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA
EST: gi|125109396|gb|EL161867.1|EL161867
EST:     GGCACAACTGTTTCACCTCTATCCATCCAG                         AAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA
genomic: GGCACAACTGTTTCACCTCTATCCATCCAGgtctctaact ... tgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA
EST: gi|124737059|gb|EH828461.1|EH828461
EST:     CGTTATGGCACAACTGTTTCACCTCTATCCATCCAG                         AAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA
genomic: CGTTATGGCACAACTGTTTCACCTCTATCCATCCAGgtctctaact ... tgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaaatcatatcactcttttatggcttacttcatgtttgttttctgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATATTTGACTCCTTTGGAAGAAACTTCTCTCATACTCTCGGTCATGCAGTCA
                       ggcttac  putative branch site (score: 3)
                                    tttgttttct  putative PPT
               tcttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctctaactctcttgttcttcatattctattataaaatcatatcactcttttatggcttacttcatgtttgttttctgcataacagAAAGACATCGAGAAAGCCCTTGCACAAGAATTGTGAACACGCACAGAGATATTTGACTCCTTTGGAAGAAACTTCTCTCATACTCTCGGTCATGCAGTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA