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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttattaactcagtgacccaattctaatgattcacgcaactctttaaagtttgcttctggacttgcttatgtttgtctctgttgtttttttgtgtctccagATTCTTGCCTATGTCTCGCAAGTTCACCATGTTGTACTTCCAGAAGAATTGGTAGACCACGAGAATTTAACACTCGAACAG

Basic information

species Arabidopsis thaliana
transcript AT1G48850.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G48850.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv13s0019g04190.t01 (Vitis vinifera), 3'ss of exon 6
ttattaact-cagtgacccaattctaatgattcacgcaactctttaaagtttgcttctggacttgcttatgtttgtctctgttgtttttttgtg---tctccagATTCTTGCCTATGTCTCGCAAGTTCACCATGTTGTACTTCCAGAAGAATTGGTAGACCACGAGAATTTAACACTCGAACAG
  | || || |  | ||    |   ||  || ||  ||      |   | | | |  |  | |||  | | | ||||| ||   |  |||| |    ||| ||| ||||||| |||||||| ||||| ||| | ||||||||||| || || ||||| |||||||| | | |  ||||||| |||
--agtagctgctattactttttagaaacaatgcatccagaaaagtgctggtggatctt--atttgtgtgtttctgtctttgccttaattttataacatctgcagGTTCTTGCTTATGTCTCTCAAGTGCACAAGGTTGTACTTCCTGAGGATTTGGTTGACCACGAAACTCTGGCACTCGATCAG
















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|124859329|gb|EH943766.1|EH943766
EST:     CTCCTGGAGCTTTGGCCAAGAAAATTTTGAAGCAATCTGCAGGAACTGAG                         ATTCTTGCCTATGTCTCGCAAGTTCACCATGT
genomic: CTCCTGGAGCTTTGGCCAAGAAAATTTTGAAGCAATTTGCAGGAACTGAGgtgtgtttac ... gtgtctccagATTCTTGCCTATGTCTCGCAAGTTCACCATGT
EST: gi|164112924|gb|EL992535.1|EL992535
EST:     CTCCTGGAGCTTTGGCCAAGAAAATTTTGAAGCAATTTGCAGGAACTGAG                         ATTCTTGCCTATGTCTCGCAAGTTCA
genomic: CTCCTGGAGCTTTGGCCAAGAAAATTTTGAAGCAATTTGCAGGAACTGAGgtgtgtttac ... gtgtctccagATTCTTGCCTATGTCTCGCAAGTTCA
EST: gi|125230008|gb|EL244093.1|EL244093
EST:     CTTTGGCCAAGAAAATTTTGAAGCAATTTGCAGGAACTGAG                         ATTCTTGCCTATGTCTCGCAAGTTCACCATGTTAGTACTTCCAGAAGAATT
genomic: CTTTGGCCAAGAAAATTTTGAAGCAATTTGCAGGAACTGAGgtgtgtttac ... gtgtctccagATTCTTGCCTATGTCTCGCAAGTTCACCATGTT-GTACTTCCAGAAGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttgcttctggacttgcttatgtttgtctctgttgtttttttgtgtctccagATTCTTGCCTATGTCTCGCAAGTTCACCATGTTGTACTTCCAGAAGAATTGGTAGACCACGAGAATTTAACACTCGAACAG
                                      tttttttgtgtctcc  CT-rich tract
                                   ttgttttttt  TA-rich tract