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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaaccatttcctttacaaattttacgaggctttgttttgtctggttaagtgaatgaaggagttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACTGTTAAAGGAGTTTGCTCAAATTTCTTGT

Basic information

species Arabidopsis thaliana
transcript AT1G20020.3
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|124727766|gb|EH819168.1|EH819168
EST:     TTTACTCTATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGA
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGA
EST: gi|125203376|gb|EL218330.1|EL218330
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATA
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATA
EST: gi|124812369|gb|EH897235.1|EH897235
EST:     CTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTT
genomic: CTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTT
EST: gi|86065487|gb|DR361244.1|DR361244
EST:     ACTCCATTGCAAGCAGCGCTCTTGGAGATCTTCGGCAATTCTGAAAACC
genomic: ACTCCATTGCAAGCAGCGCTCTTGGAGATCT-CGGCAATTCTGAAA-CC
EST: gi|164120642|gb|ES121534.1|ES121534
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAA
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAA
EST: gi|124743255|gb|EH834417.1|EH834417
EST:     ATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: ATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|124960086|gb|EL034778.1|EL034778
EST:     CAATTCTGAAATC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: CAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|116472061|gb|EG514653.1|EG514653
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|86065447|gb|DR361204.1|DR361204
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTT
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTT
EST: gi|125158342|gb|EL186985.1|EL186985
EST:     CAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: CAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|125317036|gb|EL331121.1|EL331121
EST:     GAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: GAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|125195512|gb|EL210466.1|EL210466
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGA
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGA
EST: gi|125187565|gb|EL202519.1|EL202519
EST:     CCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: CCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|125021112|gb|EL093381.1|EL093381
EST:     GGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: GGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|124993375|gb|EL065644.1|EL065644
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTAGTGTGTTAAAAGACTTGTTTATACTAATGACCAA
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTT-GTGTGTTAAAAGACTTGTTTATACTAATGACCAA
EST: gi|124765891|gb|EH856021.1|EH856021
EST:     ATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: ATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|124817256|gb|EH902122.1|EH902122
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTG
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTG
EST: gi|47829155|gb|CK118839.1|CK118839
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|125263182|gb|EL277267.1|EL277267
EST:     CTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
genomic: CTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACT
EST: gi|124711328|gb|EH802730.1|EH802730
EST:     TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACC                         GTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATG
genomic: TTTACTCCATTGCAAGCAGCGCTCTTGGAGATCTCGGCAATTCTGAAACCgtaataaacc ... gttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaattttacgaggctttgttttgtctggttaagtgaatgaaggagttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACTGTTAAAGGAGTTTGCTCAAATTTCTTGT
                                              ttgtttc  CT-rich tract
               tttgtttt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataaaccatttcctttacaaattttacgaggctttgttttgtctggttaagtgaatgaaggagttgtttcagGTTTCTTTGTGTGTTAAAAGACTTGTTTATACTAATGACCAAGGAGAGACTGTTAAAGGAGTTTGCTCAAATTTCTTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG