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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtataaatatgttttaaatcgttgcttgcgcttcaagaaaccgtttgcttgtctttcaccttcttttctttttttttggctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGGATGACGTATCTAATGAAGTACCCACAAGTGTTGAAGAAAGCTCAAGCAG

Basic information

species Arabidopsis thaliana
transcript AT4G13770.1
intron # 1
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|86072990|gb|DR368747.1|DR368747
EST:     AACCTTTCGCTTCTGAATTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
EST: gi|86072989|gb|DR368746.1|DR368746
EST:     AACCTTTCGCTTCTGAATTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
EST: gi|125187968|gb|EL202922.1|EL202922
EST:     AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGAT
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGAT
EST: gi|125016619|gb|EL088888.1|EL088888
EST:     AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGG
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGG
EST: gi|125289004|gb|EL303089.1|EL303089
EST:     AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
EST: gi|116471668|gb|EG514260.1|EG514260
EST:     AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
EST: gi|125240827|gb|EL254912.1|EL254912
EST:     CGCTTCTGAGTTTACTGTAGATAATGTTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
genomic: CGCTTCTGAGTTTACTGTAGATAATG-TCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
EST: gi|116473535|gb|EG516127.1|EG516127
EST:     AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTG
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTG
EST: gi|116437206|gb|EG479798.1|EG479798
EST:     AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGG
EST: gi|125084767|gb|EL144860.1|EL144860
EST:     AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTG                         GATATTGTAGTGGCGGGAACAGATA
genomic: AACCTTTCGCTTCTGAGTTTACTGTAGATAATGTCAAAGCCGTCATCTTGgtaagtataa ... gctccaaaagGATATTGTAGTGGCGGGAACAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagaaaccgtttgcttgtctttcaccttcttttctttttttttggctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGGATGACGTATCTAATGAAGTACCCACAAGTGTTGAAGAAAGCTCAAGCAG
          tttgcttgtctttcac  CT-rich tract
                           ttcttttctttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtataaatatgttttaaatcgttgcttgcgcttcaagaaaccgtttgcttgtctttcaccttcttttctttttttttggctccaaaagGATATTGTAGTGGCGGGAACAGATACTGCAGCTGCGGCGGTTGTGTGGGGGATGACGTATCTAATGAAGTACCCACAAGTGTTGAAGAAAGCTCAAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA