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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattatcttcattcaaagtctctctgactttctatgtgtgttgtgatgatgaaaccaggatcttaagaggcttcacttgttgaaaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATTCTATCCGTCACTTTCGTTCTATTCGTTGGAGAG

Basic information

species Arabidopsis thaliana
transcript AT4G14230.1
intron # 2
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|86061015|gb|DR356772.1|DR356772
EST:     AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAG                         GGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
genomic: AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAGgtaattatct ... aaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
EST: gi|47830040|gb|CK119724.1|CK119724
EST:     AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAG                         GGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
genomic: AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAGgtaattatct ... aaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
EST: gi|125261516|gb|EL275601.1|EL275601
EST:     CATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAG                         GGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGC
genomic: CATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAGgtaattatct ... aaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGC
EST: gi|86061013|gb|DR356770.1|DR356770
EST:     AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAG                         GGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
genomic: AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAGgtaattatct ... aaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
EST: gi|86061014|gb|DR356771.1|DR356771
EST:     AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAG                         GGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
genomic: AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAGgtaattatct ... aaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
EST: gi|86061017|gb|DR356774.1|DR356774
EST:     AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAG                         GGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
genomic: AGCATCAGCTTTTAGTGACTCTGCTTCTGTTTAATGCTCTTGCTATGGAGgtaattatct ... aaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT
EST: gi|125039652|gb|EL111921.1|EL111921
EST:     CTTCTGTTTAATGCTCTTGCTATGGAG                         GGGCTTCCTATATACTTGGATAGGATATTCAATGAGTATGTTGCTATTATT
genomic: CTTCTGTTTAATGCTCTTGCTATGGAGgtaattatct ... aaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgtgatgatgaaaccaggatcttaagaggcttcacttgttgaaaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATTCTATCCGTCACTTTCGTTCTATTCGTTGGAGAG
                                         ttgaaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattatcttcattcaaagtctctctgactttctatgtgtgttgtgatgatgaaaccaggatcttaagaggcttcacttgttgaaaatttgcagGGGCTTCCTATATACTTGGATAAGATATTCAATGAGTATGTTGCTATTATTCTATCCGTCACTTTCGTTCTATTCGTTGGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA