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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcaccaacgtgtaatcatttgaggatttaattaagtttcacattttttttgcataatatagaagttgttttggtgatgtcagGGGAAATCTTTACGAGGTGGACCTCAAATGATTCAGCTGAGCCTCGATGGGAAACGATTGTATGCAACAAACTCGCTGTTTAGCGCATGGGATCGTCAGT

Basic information

species Arabidopsis thaliana
transcript AT4G14030.1
intron # 6
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|124746904|gb|EH837200.1|EH837200
EST:     CGGTTGGAGAAGACGGAAACACTTTCCAATTCGAGGTTCCTCAGATCAAG                         GGGAAATCTTT
genomic: CGGTTGGAGAAGACGGAAACACTTTCCAATTCGAGGTTCCTCAGATCAAGgtttgcacca ... gtgatgtcagGGGAAATCTTT
EST: gi|124835292|gb|EH919731.1|EH919731
EST:     CGAGGTTCCTCAGATCAAG                         GGGAAATCTTTACGAGGTGGACCTCAAATGATTCAGCTGAGCCTCGATGGG
genomic: CGAGGTTCCTCAGATCAAGgtttgcacca ... gtgatgtcagGGGAAATCTTTACGAGGTGGACCTCAAATGATTCAGCTGAGCCTCGATGGG
EST: gi|124905782|gb|EH979862.1|EH979862
EST:     CGGTTGGAGAAGACGGAAACACTTTCCAATTCGAGGTTCCTCAGATCAAG                         GGGAAATCTTT
genomic: CGGTTGGAGAAGACGGAAACACTTTCCAATTCGAGGTTCCTCAGATCAAGgtttgcacca ... gtgatgtcagGGGAAATCTTT
EST: gi|47831973|gb|CK121657.1|CK121657
EST:     CGGTTGGAGAAGACGGAAACACTTTCCAATTCGAGGTTCCTCAGATCAAG                         GGGAAATCTTTACGAGGTGNACCTCAAATGATTCAGCTGAGCCTCGATG
genomic: CGGTTGGAGAAGACGGAAACACTTTCCAATTCGAGGTTCCTCAGATCAAGgtttgcacca ... gtgatgtcagGGGAAATCTTTACGAGGTGGACCTCAAATGATTCAGCTGAGCCTCGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattaagtttcacattttttttgcataatatagaagttgttttggtgatgtcagGGGAAATCTTTACGAGGTGGACCTCAAATGATTCAGCTGAGCCTCGATGGGAAACGATTGTATGCAACAAACTCGCTGTTTAGCGCATGGGATCGTCAGT
 atttaat  putative branch site (score: 4)
              attttttttgcataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgcaccaacgtgtaatcatttgaggatttaattaagtttcacattttttttgcataatatagaagttgttttggtgatgtcagGGGAAATCTTTACGAGGTGGACCTCAAATGATTCAGCTGAGCCTCGATGGGAAACGATTGTATGCAACAAACTCGCTGTTTAGCGCATGGGATCGTCAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT