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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgaaaatttaaatatttttgcattttaccttttcttcattttagttactgactaatattaatgtatcaaatgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGGATACTTATGAGCCTTTCTTGAG

Basic information

species Arabidopsis thaliana
transcript AT3G42050.1
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|47832017|gb|CK121701.1|CK121701
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|86031310|gb|DR327063.1|DR327063
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|116433606|gb|EG476198.1|EG476198
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|116433595|gb|EG476187.1|EG476187
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|125235783|gb|EL249868.1|EL249868
EST:     GAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAACGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAA
genomic: GAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAA
EST: gi|86031307|gb|DR327060.1|DR327060
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTGTGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|86031303|gb|DR327056.1|DR327056
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|86031311|gb|DR327064.1|DR327064
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|86031308|gb|DR327061.1|DR327061
EST:     GAAACTGTCGGAAANATGGTTTTGGCTTTGGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGGATGAATCTTTGGCAAATG
genomic: GAAACTGTCG-AAT-ATG-TTTTGGCTTTG-ATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATG-ATGAATCTTTGGCAAATG
EST: gi|125039209|gb|EL111478.1|EL111478
EST:     AAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: AAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|124947534|gb|EL023364.1|EL023364
EST:     GGAAGAAACTGTCGAATATGTTATGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTT
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTT
EST: gi|86031304|gb|DR327057.1|DR327057
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGG
EST: gi|86031313|gb|DR327066.1|DR327066
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGATG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATG
EST: gi|125135987|gb|EL176017.1|EL176017
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACGAGCTCGATTATTCCATGA
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGATTATTCCATGA
EST: gi|86031315|gb|DR327068.1|DR327068
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCCAACACG
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACG
EST: gi|86031317|gb|DR327070.1|DR327070
EST:     GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAG                         CAAACCAAACACGAGCTCGAT
genomic: GGAAGAAACTGTCGAATATGTTTTGGCTTTGATTTATGAAATGCTCTCAGgtaaatgaaa ... atgtttccagCAAACCCAACACGAGCTCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaccttttcttcattttagttactgactaatattaatgtatcaaatgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGGATACTTATGAGCCTTTCTTGAG
                                              tgtttcc  CT-rich tract
                            taatattaatgtatca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatgaaaatttaaatatttttgcattttaccttttcttcattttagttactgactaatattaatgtatcaaatgtttccagCAAACCCAACACGAGCTCGATTATTCCATGATGAATCTTTGGCAAATGAGGATACTTATGAGCCTTTCTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT