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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctaaaaagaaatttttgatgtgtgttgactgtcttttaaacctgccaacaagctctgagtatatattttgttgccactaatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAG

Basic information

species Arabidopsis thaliana
transcript AT4G21790.1
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|125221982|gb|EL236067.1|EL236067
EST:     TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG                         GCTAGAAGCTTACCTACAGATAAGCTG
genomic: TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAGgtacctaaaa ... taatgagcagGCTAGAAGCTTACCTACAGATAAGCTG
EST: gi|301502535|gb|HO208075.1|HO208075
EST:     TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG                         GCTAGAAGCTTACCTACAGATAAGCTGCGGA
genomic: TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAGgtacctaaaa ... taatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGA
EST: gi|86038987|gb|DR334742.1|DR334742
EST:     TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG                         GCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAAC
genomic: TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAGgtacctaaaa ... taatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAAC
EST: gi|86038988|gb|DR334743.1|DR334743
EST:     TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG                         GCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAA
genomic: TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAGgtacctaaaa ... taatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAA
EST: gi|86038984|gb|DR334739.1|DR334739
EST:     TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG                         GCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCT
genomic: TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAGgtacctaaaa ... taatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCT
EST: gi|86038983|gb|DR334738.1|DR334738
EST:     TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG                         GCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAAC
genomic: TCTCGGCATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAGgtacctaaaa ... taatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAAC
EST: gi|124850384|gb|EH934821.1|EH934821
EST:     CATANACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAG                         GCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCT
genomic: CATACACGCTGCTTGTGCTGTTCTGGGCAGAGATATATCACCAGgtacctaaaa ... taatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttaaacctgccaacaagctctgagtatatattttgttgccactaatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAG
                                          cactaat  putative branch site (score: 2)
                         agtatatattttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacctaaaaagaaatttttgatgtgtgttgactgtcttttaaacctgccaacaagctctgagtatatattttgttgccactaatgagcagGCTAGAAGCTTACCTACAGATAAGCTGCGGATAACCTATATTTCTGTCAACGTGGCTGTATATTTGGCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC