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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTGGCATTTATTCTCCACTCTCTCTCACTTGTCTTCTTCTTCTTCTACGATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctcactttcgatctctgttttccctcttgttttggggtttattagcttcgttgtttattcctttaaaagatttcttctttctcaatttcaatta...

Basic information

species Arabidopsis thaliana
transcript AT3G08680.2
intron # 1
splice site 5'
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|164204415|gb|ES121306.1|ES121306
EST:     GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAG                         TTGCTGTTGAATGAGA
genomic: GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGA
EST: gi|124934556|gb|EL011617.1|EL011617
EST:     TTCTCCTCTGAACCAACCTCTAAG                         TTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
genomic: TTCTCCTCTGAATCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
EST: gi|86069715|gb|DR365472.1|DR365472
EST:     GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAG                         TTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
genomic: GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
EST: gi|124707796|gb|EH799198.1|EH799198
EST:     TCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAG                         TTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAG
genomic: TCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAG
EST: gi|86069720|gb|DR365477.1|DR365477
EST:     GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAG                         TTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
genomic: GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
EST: gi|125148063|gb|EL181964.1|EL181964
EST:     TCAACCTCTAAG                         TTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
genomic: TCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
EST: gi|86069723|gb|DR365480.1|DR365480
EST:     GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAG                         TTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
genomic: GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGAAAGCTTTGATGTGAGCGAGCCTGAGAGTGTAACAA
EST: gi|86069724|gb|DR365481.1|DR365481
EST:     GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAG                         TTGCTGTTGAATGAGAAAGCT
genomic: GATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctca ... tctcttgcagTTGCTGTTGAATGAGAAAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTTGGCATTTATTCTCCACTCTCTCTCACTTGTCTTCTTCTTCTTCTACGATCAGCTCACCAATGTCCTGAACCATTCTCCTCTGAATCAACCTCTAAGgtctctctcactttcgatctctgttttccctcttgttttggggtttattagcttcgttgtttattcctttaaaagatttcttctttctcaatttcaatta

- - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctcactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgatctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccctctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctttctc