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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattttctatgtgacacggaaaaatcccttgccttaagctatttactgcctaagaattggtcctgattttttatactattttctggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGATGATTACATATCGTTTGTTTCACTCCTTGCTGATCCACGTTACTGCG

Basic information

species Arabidopsis thaliana
transcript AT2G25910.1
intron # 4
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|86035177|gb|DR330930.1|DR330930
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCHGATTGAAGAACAAGAAGGGCGGAGGAGAC-TCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035184|gb|DR330937.1|DR330937
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035180|gb|DR330933.1|DR330933
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGA-CAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035183|gb|DR330936.1|DR330936
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035181|gb|DR330934.1|DR330934
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035176|gb|DR330929.1|DR330929
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|125089411|gb|EL147790.1|EL147790
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGG
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGG
EST: gi|86035179|gb|DR330932.1|DR330932
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|124796397|gb|EH886076.1|EH886076
EST:     AATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: AATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035186|gb|DR330939.1|DR330939
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035185|gb|DR330938.1|DR330938
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
EST: gi|86035174|gb|DR330927.1|DR330927
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAG
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAG
EST: gi|86035182|gb|DR330935.1|DR330935
EST:     CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAG                         ATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT
genomic: CTCTATACTTCCAGTTTGGGATAAGATTGCACAATGTTGTGGACACTCAGgtatattttc ... tggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatttactgcctaagaattggtcctgattttttatactattttctggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGATGATTACATATCGTTTGTTTCACTCCTTGCTGATCCACGTTACTGCG
                      tcctgat  putative branch site (score: 3)
                                     ctattttct  putative PPT
                         tgattttttatactat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatattttctatgtgacacggaaaaatcccttgccttaagctatttactgcctaagaattggtcctgattttttatactattttctggattacagATTGCTTATTCTCTGATTGAAGAACAAGAAGGGCGGAGGAGACCTCTAGATGATTACATATCGTTTGTTTCACTCCTTGCTGATCCACGTTACTGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT