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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcaaacatcataactgatattgttgcttatataaaagttgaaagtttgagaaatgtaagagaagtagaataacttaagatttgatttgtcttcttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCATTGGTTGGTGTTCTAGCTGCGGTTTTCATCTTCCAATCTTCTTCTAAAA

Basic information

species Arabidopsis thaliana
transcript AT4G34190.1
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|125015428|gb|EL087697.1|EL087697
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGT
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGT
EST: gi|125009725|gb|EL081994.1|EL081994
EST:     TTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
genomic: TTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
EST: gi|125259801|gb|EL273886.1|EL273886
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAG
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAG
EST: gi|125287811|gb|EL301896.1|EL301896
EST:     GCAGTTGCCATTACTGTTGAGAGTTTCCACTGGAAAAGGAACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
genomic: GCAGTTGCCATTACTGTTGAGA-TTTCCACTGGAAAAGG-ACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
EST: gi|124944103|gb|EL020238.1|EL020238
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGT
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGT
EST: gi|125321851|gb|EL335936.1|EL335936
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCA
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCA
EST: gi|116429103|gb|EG471695.1|EG471695
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
EST: gi|164178860|gb|ES213291.1|ES213291
EST:     AAAGGACTTCTTGAG                         A
genomic: AAAGGACTTCTTGAGgtaatcaaac ... cttatttcag-
EST: gi|164178860|gb|ES213291.1|ES213291
EST:     AAAGGACTTCTTGAG                         A
genomic: AAAGGACTTCTTGAGgtaatcaaac ... cttatttcag-
EST: gi|125054225|gb|EL125028.1|EL125028
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTAC
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTAC
EST: gi|124765634|gb|EH855764.1|EH855764
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAG
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAG
EST: gi|163975262|gb|ES111744.1|ES111744
EST:     AAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
genomic: AAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
EST: gi|125041956|gb|EL114225.1|EL114225
EST:     ATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGTAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGC
genomic: ATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGG-AGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGC
EST: gi|47831402|gb|CK121086.1|CK121086
EST:     TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAG                         AATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA
genomic: TTGCAGTTGCCATTACTGTTGAGATTTCCACTGGAAAAGGACTTCTTGAGgtaatcaaac ... cttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagaaatgtaagagaagtagaataacttaagatttgatttgtcttcttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCATTGGTTGGTGTTCTAGCTGCGGTTTTCATCTTCCAATCTTCTTCTAAAA
                                     tttgtcttcttatttc  CT-rich tract
                    aataacttaagattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatcaaacatcataactgatattgttgcttatataaaagttgaaagtttgagaaatgtaagagaagtagaataacttaagatttgatttgtcttcttatttcagAATTTTGGAGTAGCAAGTCCATTGCCTACGGTTGCTTTAGCTGTTACAGCATTGGTTGGTGTTCTAGCTGCGGTTTTCATCTTCCAATCTTCTTCTAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC