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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatagttttgtttgcttgtggttcaggaaatgtaaaaagtttgaagttttgagttaagtctggttttaagtaatttcttagttgtgttgtgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCATTAGATAAGAAGTATGGAAACGGTGCTAGGATGAACCGAGCAACTAACAG

Basic information

species Arabidopsis thaliana
transcript AT3G10490.1
intron # 2
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|164029436|gb|ES072630.1|ES072630
EST:     TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAG                         TGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTAC
genomic: TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAGgttcgctggg ... tgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTAC
EST: gi|164211215|gb|ES034169.1|ES034169
EST:     TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAG                         TGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAG
genomic: TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAGgttcgctggg ... tgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAG
EST: gi|86087027|gb|DR382786.1|DR382786
EST:     TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAG                         TGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTYTACAGTGCAT
genomic: TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAGgttcgctggg ... tgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCAT
EST: gi|125202039|gb|EL216993.1|EL216993
EST:     GTCGATATATACAAGCATGAGCCCTGGGATTTAGCAG                         TGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCAT
genomic: GTCGATATATACAAGCATGAGCCCTGGGATTTAGCAGgttcgctggg ... tgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCAT
EST: gi|86084202|gb|DR379961.1|DR379961
EST:     TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAG                         TGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCAT
genomic: TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAGgttcgctggg ... tgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCAT
EST: gi|86070291|gb|DR366048.1|DR366048
EST:     TGCGATTGGAGAGGTCGATATATACAAGCATGANCCCTGGGATTTAACAG                         TGTTTTCGAGATTGAAGACAAGGNACCAAGAATGGTACTTCTACAGTGCAT
genomic: TGCGATTGGAGAGGTCGATATATACAAGCATGAGCCCTGGGATTTAGCAGgttcgctggg ... tgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttgagttaagtctggttttaagtaatttcttagttgtgttgtgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCATTAGATAAGAAGTATGGAAACGGTGCTAGGATGAACCGAGCAACTAACAG
                   ttttaagtaatttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctatagttttgtttgcttgtggttcaggaaatgtaaaaagtttgaagttttgagttaagtctggttttaagtaatttcttagttgtgttgtgtgtttaagTGTTTTCGAGATTGAAGACAAGGGACCAAGAATGGTACTTCTACAGTGCATTAGATAAGAAGTATGGAAACGGTGCTAGGATGAACCGAGCAACTAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG