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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCTGCTCATCGGAAGGGTAATGACTGATGGTAGACTAAATGCGAGACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtaccacaactttagaaaatctgttttttctaggtgtagctggaaattacgttcgttctctctgtaatattgtgtttgtcatctttgtttactttctttaccag

Basic information

species Arabidopsis thaliana
transcript AT3G20000.1
intron # 4
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|86035196|gb|DR330949.1|DR330949
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGG
EST: gi|86035194|gb|DR330947.1|DR330947
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAGC
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGC
EST: gi|47829613|gb|CK119297.1|CK119297
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
EST: gi|86035192|gb|DR330945.1|DR330945
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
EST: gi|86035204|gb|DR330957.1|DR330957
EST:     GACTGAAAGCAGATTTACCTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAG
EST: gi|86035187|gb|DR330940.1|DR330940
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATA-CAAATGAGGAACATATGT
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGT
EST: gi|86035206|gb|DR330959.1|DR330959
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
EST: gi|86035207|gb|DR330960.1|DR330960
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
EST: gi|86035215|gb|DR330968.1|DR330968
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAANNNATGTTCAACTTTGATTACATG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
EST: gi|86035199|gb|DR330952.1|DR330952
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
EST: gi|86035201|gb|DR330954.1|DR330954
EST:     GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTG                         ATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG
genomic: GACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtacca ... tctttaccagATAACAAATGAGGAACATATGTCACAAGCAATGTTCAACTTTGATTACATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCTGCTCATCGGAAGGGTAATGACTGATGGTAGACTAAATGCGAGACTGAAAGCAGATTTAACTGATAAGTTAGTTGTGAAGGCGAATGCTCTGgtaagtaccacaactttagaaaatctgttttttctaggtgtagctggaaattacgttcgttctctctgtaatattgtgtttgtcatctttgtttactttctttaccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT