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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGGTCTAAGGGTTTTGTAATTTCGAAGCTTCTCTCTCTCGTTTCTCAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgcttcgttccccatttctctctgattagattttgtgtttgttcgttttgcttcgattctgcgatttttgatttgcccaattagattcgatttcg...

Basic information

species Arabidopsis thaliana
transcript AT1G47278.1
intron # 1
splice site 5'
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|116480792|gb|EG523384.1|EG523384
EST:     AATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
genomic: AATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
EST: gi|116480793|gb|EG523385.1|EG523385
EST:     GCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
genomic: GCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
EST: gi|116480790|gb|EG523382.1|EG523382
EST:     AATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
genomic: AATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
EST: gi|116480799|gb|EG523391.1|EG523391
EST:     GCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
genomic: GCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
EST: gi|164150033|gb|ES156511.1|ES156511
EST:     CAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTTAGTTGAGAG
genomic: CAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTT-AGTTGAGAG
EST: gi|116480789|gb|EG523381.1|EG523381
EST:     CAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
genomic: CAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
EST: gi|124886609|gb|EH965511.1|EH965511
EST:     GCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTAGTTGAGAGAGCTATAATGGGGAGAAAGG
genomic: GCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTTAGTTGAGAGAGCTATAATGGGGAGAAAGG
EST: gi|116480772|gb|EG523364.1|EG523364
EST:     CAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTT                         TTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC
genomic: CAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgctt ... ggttctttagTTAGTTGAGAGAGCTATAATGGGGAGAAAGGCTGGAAATTTGTACATAAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGGGTCTAAGGGTTTTGTAATTTCGAAGCTTCTCTCTCTCGTTTCTCAATCTGCGATTCACCATTTCTCTCGTCTCGTCGTCTCTCAGAAATCTTTgtaagtgcttcgttccccatttctctctgattagattttgtgtttgttcgttttgcttcgattctgcgatttttgatttgcccaattagattcgatttcg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcgttccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctctct