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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtccttttttcggaattttgtaataatcgattcagatttggatttgtatattgatcttccaggaattgacgagttttgatttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGCTCCAGCTGTTGAAGCTGAG

Basic information

species Arabidopsis thaliana
transcript AT5G19510.1
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|125185919|gb|EL200873.1|EL200873
EST:     CGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
genomic: CGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
EST: gi|164111523|gb|ES047318.1|ES047318
EST:     CGAGTCCGTGGCTTCCCTACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGC
genomic: CGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGC
EST: gi|125017112|gb|EL089381.1|EL089381
EST:     CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGG
genomic: CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGG
EST: gi|124866812|gb|EH951249.1|EH951249
EST:     TACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCCGCTGCTGC
genomic: TACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
EST: gi|164136334|gb|ES010098.1|ES010098
EST:     CTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
genomic: CTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
EST: gi|164156949|gb|EL994142.1|EL994142
EST:     CAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
genomic: CAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
EST: gi|125064602|gb|EL132168.1|EL132168
EST:     CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTG
genomic: CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTG
EST: gi|125233100|gb|EL247185.1|EL247185
EST:     GTGGCTTCCCAACTTGCTAAAAG                         TTTACCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTG
genomic: GTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTT-CCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTG
EST: gi|152034690|gb|BP834827.2|BP834827
EST:     CCCAATGCTAGCAAGTGGTACGAGTC-GTGGGTTCCCAACTTGCTAAAAG                         TT-CCCTGCAAAGGCCGTCGGAGTACAATTCGGTGGCTCTGCTGATGCTGC
genomic: CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
EST: gi|125061658|gb|EL130297.1|EL130297
EST:     CCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAAG                         TTTCACTGGAAAGGCCGTTGGAGTACAATTCGGTGG
genomic: CCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAA-Ggttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGG
EST: gi|124974581|gb|EL048131.1|EL048131
EST:     TACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTAACAATTCGGTGGCTCTGCTGCTGACT
genomic: TACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTA-CAATTCGGTGGCTCTGCTGCTG-CT
EST: gi|125195559|gb|EL210513.1|EL210513
EST:     CTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
genomic: CTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
EST: gi|116450797|gb|EG493389.1|EG493389
EST:     CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
genomic: CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
EST: gi|124982204|gb|EL055027.1|EL055027
EST:     CCCAATGCTAGCAAGTGGTACGAGTC-GTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTA
genomic: CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTA
EST: gi|124803267|gb|EH891696.1|EH891696
EST:     CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGG
genomic: CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGG
EST: gi|124946172|gb|EL022118.1|EL022118
EST:     CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTAC
genomic: CCCAATGCTAGCAAGTGGTACGAGTCCGTGGCTTCCCAACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTAC
EST: gi|124759538|gb|EH849668.1|EH849668
EST:     AACTTGCTAAAAG                         TTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC
genomic: AACTTGCTAAAAGgttcgtcctt ... tttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttggatttgtatattgatcttccaggaattgacgagttttgatttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGCTCCAGCTGTTGAAGCTGAG
       atttgtatattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgtccttttttcggaattttgtaataatcgattcagatttggatttgtatattgatcttccaggaattgacgagttttgatttgttgcagTTTCCCTGGAAAGGCCGTTGGAGTACAATTCGGTGGCTCTGCTGCTGCTGCTCCAGCTGTTGAAGCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA