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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagttatgagatacctctttttattctctctttcttataaatatcgagtcattgataataatgtttttgaaattctagatgtcatcaactaactttctgcgatgattatgtatggtttaatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATG

Basic information

species Arabidopsis thaliana
transcript AT4G36760.1
intron # 12
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|86064644|gb|DR360401.1|DR360401
EST:     TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAG                         GACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
genomic: TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAGgcaagttatg ... taatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
EST: gi|116468011|gb|EG510603.1|EG510603
EST:     TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAG                         GACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
genomic: TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAGgcaagttatg ... taatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
EST: gi|116468010|gb|EG510602.1|EG510602
EST:     TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAG                         GACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
genomic: TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAGgcaagttatg ... taatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
EST: gi|86087805|gb|DR383564.1|DR383564
EST:     TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAG                         GACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
genomic: TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAGgcaagttatg ... taatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
EST: gi|86064645|gb|DR360402.1|DR360402
EST:     TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAG                         GACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG
genomic: TCGACATGGTACTGGTCATGGAGTTGGTTCTTACCTTTGTGTTCATGAAGgcaagttatg ... taatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctagatgtcatcaactaactttctgcgatgattatgtatggtttaatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATG
                                           tttaatatgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagttatgagatacctctttttattctctctttcttataaatatcgagtcattgataataatgtttttgaaattctagatgtcatcaactaactttctgcgatgattatgtatggtttaatatgtagGACCTCACCAAGTTAGTTTCAGACCGAGTGCCAGGAATGTACCTCTTCAAGCTACCATGACTGTAACAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG