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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattagtagcaaactattctgtgattcagttctggttagtgccaaatataaatctgaacttgtctgtactgatcttactaataacattatatttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACAACCAACCAACCAACTCTGGAAGATGAAGAAAAAGTAAAAGACTACGAGC

Basic information

species Arabidopsis thaliana
transcript AT3G03773.1
intron # 5
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|116376041|gb|EG418633.1|EG418633
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAGGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376031|gb|EG418623.1|EG418623
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116379913|gb|EG422505.1|EG422505
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376182|gb|EG418774.1|EG418774
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376187|gb|EG418779.1|EG418779
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376018|gb|EG418610.1|EG418610
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376174|gb|EG418766.1|EG418766
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376032|gb|EG418624.1|EG418624
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376177|gb|EG418769.1|EG418769
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAGGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376171|gb|EG418763.1|EG418763
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376193|gb|EG418785.1|EG418785
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376180|gb|EG418772.1|EG418772
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA
EST: gi|116376038|gb|EG418630.1|EG418630
EST:     TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCT                         ATCTTCCTGATCTGGAAAGGGCAAGAAACAAGTAGCTTAACCGCAACAACA
genomic: TTTGTTAATCAAGATAGTGAAAGCAGCGATGACGATGGATTGCTCTgtaagtttca ... atttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atataaatctgaacttgtctgtactgatcttactaataacattatatttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACAACCAACCAACCAACTCTGGAAGATGAAGAAAAAGTAAAAGACTACGAGC
                                 taataac  putative branch site (score: 1)
                          atcttactaataacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattagtagcaaactattctgtgattcagttctggttagtgccaaatataaatctgaacttgtctgtactgatcttactaataacattatatttggtcagATCTTCCTGATCTGGAAAAGGCAAGAAACAAGTAGCTTAACCGCAACAACAACCAACCAACCAACTCTGGAAGATGAAGAAAAAGTAAAAGACTACGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - -caaacta
- - - - - - - - - - - - - - - - - - - - -ccaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaca