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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgaacattcttttttgctaacaaatagtttgtcaatggcttggtttggaccagttttaatgtatttttaactaaagcacaaacaaattacttaaggatattatgggtgctgcagtattcagttcaacatcatgatctctgtttataatcatgggttcttgaagtcctctttttgtttgctttttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATCCCACAGTCATATGCCGAG

Basic information

species Arabidopsis thaliana
transcript AT5G26360.1
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|47829135|gb|CK118819.1|CK118819
EST:     TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAG                         CTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
genomic: TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAGgtacgaacat ... ttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
EST: gi|124854385|gb|EH938822.1|EH938822
EST:     TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAG                         CTGGTGAAATGCTTCACGTTGCAGAAGCG
genomic: TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAGgtacgaacat ... ttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCG
EST: gi|86074170|gb|DR369927.1|DR369927
EST:     TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAG                         CTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
genomic: TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAGgtacgaacat ... ttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
EST: gi|124752716|gb|EH842846.1|EH842846
EST:     TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAG                         CTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
genomic: TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAGgtacgaacat ... ttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
EST: gi|47830309|gb|CK119993.1|CK119993
EST:     TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAG                         CTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
genomic: TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAGgtacgaacat ... ttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
EST: gi|125205496|gb|EL220450.1|EL220450
EST:     TGATGGGACAACGTCTGTTATTGTTCTAG                         CTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
genomic: TGATGGGACAACGTCTGTTATTGTTCTAGgtacgaacat ... ttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATC
EST: gi|124798343|gb|EH888022.1|EH888022
EST:     TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAG                         CTGGTAGAAATGCTTCACGTTGCAGAAG
genomic: TACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAGgtacgaacat ... ttgccaacagCTGGT-GAAATGCTTCACGTTGCAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtttataatcatgggttcttgaagtcctctttttgtttgctttttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATCCCACAGTCATATGCCGAG
                          tcctctttttgtttgc  CT-rich tract
     tataatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgaacattcttttttgctaacaaatagtttgtcaatggcttggtttggaccagttttaatgtatttttaactaaagcacaaacaaattacttaaggatattatgggtgctgcagtattcagttcaacatcatgatctctgtttataatcatgggttcttgaagtcctctttttgtttgctttttgccaacagCTGGTGAAATGCTTCACGTTGCAGAAGCGTTTCTTGAGAAGAATTACCATCCCACAGTCATATGCCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC