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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcctttagtactacattttctaaccaatatttatacttcaattatttttgtcttatccaatttttgttttcactatctagTGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTTCAAGTTTCTGAGCTTTCTGGTTTGTTGGATGGATCAAGAGCCTTGCATGGTGAAATACCTCAA

Basic information

species Arabidopsis thaliana
transcript AT5G62190.1
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|125314142|gb|EL328227.1|EL328227
EST:     CAGTTGCTATAGCAG                         TGGAGGCCAAACTATTATTTTCGCTGAAACTAAAAGTTCAAGTTTCTGAGC
genomic: CAGTTGCTATAGCAGgtatccttta ... cactatctagTGGAGGCCAAACTATTATTTTCGCTGAAACT-AAAGTTCAAGTTTCTGAGC
EST: gi|125322620|gb|EL336705.1|EL336705
EST:     CAGTTGCTATAGCAG                         TGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTTCAAGTTTCTGAGCT
genomic: CAGTTGCTATAGCAGgtatccttta ... cactatctagTGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTTCAAGTTTCTGAGCT
EST: gi|47828150|gb|CK117834.1|CK117834
EST:     AAGGCAGCCATGGCTCGGTTGATTCCTGATATTATCAGTTGCTATAGCAG                         TGGAGGCCAAACTATTATTTTCGCTGAGACTAAAGTTCAAGTTTCTGAGCT
genomic: AAGGCAGCCATGGCTCGGTTGATTCCTGATATTATCAGTTGCTATAGCAGgtatccttta ... cactatctagTGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTTCAAGTTTCTGAGCT
EST: gi|125004454|gb|EL076723.1|EL076723
EST:     AGGCAGCCATGGACTCGGTTGATTCCTGATATTATCAGTTGCTATAGCAG                         TGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTT
genomic: AGGCAGCCATGG-CTCGGTTGATTCCTGATATTATCAGTTGCTATAGCAGgtatccttta ... cactatctagTGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatatttatacttcaattatttttgtcttatccaatttttgttttcactatctagTGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTTCAAGTTTCTGAGCTTTCTGGTTTGTTGGATGGATCAAGAGCCTTGCATGGTGAAATACCTCAA
                                   tttttgttttcact  CT-rich tract
     ttatacttcaattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcctttagtactacattttctaaccaatatttatacttcaattatttttgtcttatccaatttttgttttcactatctagTGGAGGCCAAACTATTATTTTCGCTGAAACTAAAGTTCAAGTTTCTGAGCTTTCTGGTTTGTTGGATGGATCAAGAGCCTTGCATGGTGAAATACCTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA