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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaaatttttgtttcaagcttctctctttcacttaaatgtatcacacatgctcttgctcaagtgctaaacttttaaatgttggggacttgttttaattcgcagGCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTAAGAATCACATTCTACTTGGTTAACTGCGTACCTGCCAGATGTTTCTTGG

Basic information

species Arabidopsis thaliana
transcript AT1G47830.1
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|19740606|gb|AU225959.1|AU225959
EST:     TACTCGATGAGTTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGG                         GCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTA
genomic: TACTCGATGAGTTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGGgtgtgaaatt ... taattcgcagGCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTA
EST: gi|116464176|gb|EG506768.1|EG506768
EST:     TACTCGATGAGTTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGG                         GCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTA
genomic: TACTCGATGAGTTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGGgtgtgaaatt ... taattcgcagGCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTA
EST: gi|164024302|gb|ES143623.1|ES143623
EST:     ACTCGATGAGTTCTATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGG                         GCAATCATCGAAAGGATGTCAGAAC
genomic: ACTCGATGAGTTC-ATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGGgtgtgaaatt ... taattcgcagGCAATCATCGAAAGGATGTCAGAAC
EST: gi|116464171|gb|EG506763.1|EG506763
EST:     TACTCGATGAGTTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGG                         GCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTA
genomic: TACTCGATGAGTTCATTCTTGCTGGGGAGCTCCAAGAAACAAGCAAAAGGgtgtgaaatt ... taattcgcagGCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctcttgctcaagtgctaaacttttaaatgttggggacttgttttaattcgcagGCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTAAGAATCACATTCTACTTGGTTAACTGCGTACCTGCCAGATGTTTCTTGG
                                      cttgtttt  CT-rich tract
                 taaacttttaaatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgaaatttttgtttcaagcttctctctttcacttaaatgtatcacacatgctcttgctcaagtgctaaacttttaaatgttggggacttgttttaattcgcagGCAATCATCGAAAGGATGTCAGAACTCGAGAAGCTACAGTGATGACGGTTAAGAATCACATTCTACTTGGTTAACTGCGTACCTGCCAGATGTTTCTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG