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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacttccaaacccacttatcttctctgaggcacaggcacttcactaatacatggaaactaccaactcttagattgatcatttgcatcatatatccagctactgtatgaccatgcaactgattcccatgccatctttctgtattgaaattttgcttctgcagTGAAACCCTCCTCATCTTCTTTCTTCCTCAAGTTCTGAACTTTCTATTATCGCTTCCTCAG

Basic information

species Arabidopsis thaliana
transcript AT2G41490.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G41490.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 7
gtatacttccaaacccacttatcttctctgaggcacaggcacttcactaatacatggaaactaccaactcttagattgatcatttgcatcatatatccagctactgtatgaccatgcaactgattcccatgccatctttctgtattgaaattttgcttctgcagTGAAACCCTCCTCATCTTCTTTCTTCCTCAAGTTCTGAACTTTCTATTATCGCTTCCTCAG
                                                    || || | |||         | |    | |||||||| |  |  | || || | ||||    |  || |   | | |    || |  || |  | ||    || |  | |||||||||||| || || |||||| ||||||||||| | |||||||||||||| || || |||
----------------------------------------------------caagggatctat------gcataccatttatttgcataaatttgctagttatt-tatgtttgt-taattacctactaactgatatacctttcataaa----tgatgttccagTGAAACCCTGCTGATTTTCTTTATTCCTCAAGTTTTAAACTTTCTATTATCACTCCCCCAG
















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|86083719|gb|DR379478.1|DR379478
EST:     GTCTTCGCCGGAATGACTATGGCAGTTGTTGGTATTCTGGGTCACTTCAG                         TGAAACCCTCCTCATCTTCTTTCTTCCTCAAGTTCTGAACTTTCTATTATC
genomic: GTCTTCGCCGGAATGACTATGGCAGTTGTTGGTATTCTGGGTCACTTCAGgtatacttcc ... gcttctgcagTGAAACCCTCCTCATCTTCTTTCTTCCTCAAGTTCTGAACTTTCTATTATC
EST: gi|116441309|gb|EG483901.1|EG483901
EST:     TCGCTGGAACGACTGTGGCAGTTGTTGGTATTCTGGGTCACTTCAG                         TGAAACCCTCCTCATCTTCTTTCTTCCTCAAGTTCTGAACTTTCTATTATC
genomic: TCGCCGGAATGACTATGGCAGTTGTTGGTATTCTGGGTCACTTCAGgtatacttcc ... gcttctgcagTGAAACCCTCCTCATCTTCTTTCTTCCTCAAGTTCTGAACTTTCTATTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaccatgcaactgattcccatgccatctttctgtattgaaattttgcttctgcagTGAAACCCTCCTCATCTTCTTTCTTCCTCAAGTTCTGAACTTTCTATTATCGCTTCCTCAG
        aactgat  putative branch site (score: 3)
                                         ttttgcttct  putative PPT
                               tgtattgaaatttt  TA-rich tract