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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataatgtcaattctttctatgtatctactttggtacataaaacattgtcgctcacataaattttgatccgttgttctctcagAGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCAT

Basic information

species Arabidopsis thaliana
transcript AT2G01090.2
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|125296617|gb|EL310702.1|EL310702
EST:     TGGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAG                         AGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCA
genomic: TGGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAGgtaataatgt ... gttctctcagAGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCA
EST: gi|124975562|gb|EL049044.1|EL049044
EST:     TGGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAG                         AGTTCAGGTCAAGC
genomic: TGGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAGgtaataatgt ... gttctctcagAGTTCAGGTCAAGC
EST: gi|124992121|gb|EL064390.1|EL064390
EST:     GGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAG                         AGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCA
genomic: GGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAGgtaataatgt ... gttctctcagAGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCA
EST: gi|124851288|gb|EH935725.1|EH935725
EST:     GGAAATCGAATACGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAG                         AGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCAT
genomic: GGAAATCGAAT-CGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAGgtaataatgt ... gttctctcagAGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCAT
EST: gi|125312355|gb|EL326440.1|EL326440
EST:     GAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAG                         AGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCATGCCAGAAG
genomic: GAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAGgtaataatgt ... gttctctcagAGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCATGCCAGAAG
EST: gi|124827630|gb|EH912496.1|EH912496
EST:     TGGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAG                         AGTTCAGGTCAAGCTTTCTTTCCAA
genomic: TGGAGGAAATCGAATCGAATCGAAACATTTAGGGTTCCTCCTTCCTTGAGgtaataatgt ... gttctctcagAGTTCAGGTCAAGCTTTCTTTCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttggtacataaaacattgtcgctcacataaattttgatccgttgttctctcagAGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCAT
                                       tccgttgttctctc  CT-rich tract
                          acataaattttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataatgtcaattctttctatgtatctactttggtacataaaacattgtcgctcacataaattttgatccgttgttctctcagAGTTCAGGTCAAGCTTTCTTTCCAATTTCGCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT