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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctctatctatgaacatatgcaatttagcaatgctatgtgaggctctttctgcatttatgataaaaaaatttcgatcagtcttctcataatatctccattgtgttctacatgggtatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGAAGAATCGTGATGAAATAAACTTAAAACTTCGTACCAGCACAG

Basic information

species Arabidopsis thaliana
transcript AT1G10290.1
intron # 3
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|86063564|gb|DR359321.1|DR359321
EST:     CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAA                         GTGCTTTGAGACATTCTCTACNAGATAGACTTAGCAAAGGAGCCTCAGGNA
genomic: CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAAgtaagtctct ... tatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGA
EST: gi|86063559|gb|DR359316.1|DR359316
EST:     CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAA                         GTGCTTTGAGACATTCTCTACAAGATAGACTTAGCAAAGGAGCCTCAGGGA
genomic: CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAAgtaagtctct ... tatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGA
EST: gi|19876656|gb|AU237487.1|AU237487
EST:     CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAA                         GTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGA
genomic: CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAAgtaagtctct ... tatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGA
EST: gi|86063565|gb|DR359322.1|DR359322
EST:     CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAA                         GTGCTTTGAGACATTCTCTACAAGATAGACTTAGCAAAGGAGCCTCAGGGA
genomic: CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAAgtaagtctct ... tatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGA
EST: gi|86063558|gb|DR359315.1|DR359315
EST:     CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAA                         GTGCTTTGAGACATTCTCTACAAGATAGACTTAGCAAAGGAGCCTCAGGGG
genomic: CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAAgtaagtctct ... tatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGG-
EST: gi|86063561|gb|DR359318.1|DR359318
EST:     CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAA                         GTGCTTTGAGACATTCTCTACAAGATAGACTTAGCAAAGGAGCCTCAGGGA
genomic: CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAAgtaagtctct ... tatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGA
EST: gi|86063563|gb|DR359320.1|DR359320
EST:     CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAA                         GTGCTTTGAGACATTCTCTACAAGATAGACTTAGCAAAGGAGCCTCAGGGA
genomic: CAAGGCAATTATCTTGCAAATCGACAATAAATCTCAACAAGTTTCTGCAAgtaagtctct ... tatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcgatcagtcttctcataatatctccattgtgttctacatgggtatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGAAGAATCGTGATGAAATAAACTTAAAACTTCGTACCAGCACAG
                                             tatatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtctctatctatgaacatatgcaatttagcaatgctatgtgaggctctttctgcatttatgataaaaaaatttcgatcagtcttctcataatatctccattgtgttctacatgggtatattttagGTGCTTTGAGACATTCTCTGCAAGATAGACTTAGCAAAGGAGCCTCAGGGAAGAATCGTGATGAAATAAACTTAAAACTTCGTACCAGCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA