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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtttcatcttcctaaccacattatctgattgcccttcacacaagttttatcatcatctcataaatactctcatgttttactttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCCAAGAGATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTT

Basic information

species Arabidopsis thaliana
transcript AT1G12900.2
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|116451131|gb|EG493723.1|EG493723
EST:     TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|116442534|gb|EG485126.1|EG485126
EST:     TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGTAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|124819028|gb|EH903894.1|EH903894
EST:     TGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|116473085|gb|EG515677.1|EG515677
EST:     TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: TGGTAGCCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|125246740|gb|EL260825.1|EL260825
EST:     TGGCCAAACCATCTCTTCTAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGC
genomic: TGGCCAAACCATCTCTTC-AGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGC
EST: gi|124896921|gb|EH973135.1|EH973135
EST:     CCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: CCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|124713086|gb|EH804488.1|EH804488
EST:     CATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: CATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
EST: gi|124717039|gb|EH808441.1|EH808441
EST:     CCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAG                         GGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC
genomic: CCATGGCTTCGGCTACTTTCTCTGTGGCCAAACCATCTCTTCAGgttttgtttc ... actttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcacacaagttttatcatcatctcataaatactctcatgttttactttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCCAAGAGATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTT
                                       tgttttactttttc  CT-rich tract
                                      atgttttacttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttgtttcatcttcctaaccacattatctgattgcccttcacacaagttttatcatcatctcataaatactctcatgttttactttttcagGGTTTTTCTGAGTTCTCAGGACTTCGAAACTCCTCTGCTCTTCCCTTTGCCAAGAGATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC