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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatcagctctctttgttctctgtgtaacgtttgattaaaatcttaagctaattgtcttaattaagtagcctaagctgattctattgttgtgtaatggtaatttgtttagCTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCTTAACATTGGTCATCTTGATGCTAATGGTCTCTACACTGGCCAATTCACC

Basic information

species Arabidopsis thaliana
transcript AT3G53890.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G53890.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0060g02110.t01 (Vitis vinifera), 3'ss of exon 2
gtatatatcagctctctttgttctctgtgtaacgtttgattaaaatcttaagctaattgtcttaattaagtagcctaagctgattctattgttgtgtaatggtaatttgtttagCTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCTTAACATTGGTCATCTTGATGCTAATGGTCTCTACACTGGCCAATTCACC
                          || |   | || |||  | |  | ||| | |  | |||      | |   | |    | | |||| | | |  |    ||   |  ||||| || || || ||  | ||||| |||||||||||||| ||||| ||| |||||||||| ||| | ||||  | |||    ||||| || ||||| || 
--------------------------gtatgctgctttattttattgattagccatt--ttttagcgtgttgggtcatggaactccgattgatttttctt----atacttgcagCTCTGCCACTAATAGGCTCATCACTTCAAAGGATCATGCATCAGTCCAGATTAACATTGGGCATTTAGATGAGAGTGGAACTTACACCGGTCAATTTACT
















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|86060807|gb|DR356564.1|DR356564
EST:     ATGGAGAACGACGCAGGTCAGGTCACAGAGCTCTACATTCCAAGGAAATG                         CTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT
genomic: ATGGAGAACGACGCAGGTCAGGTCACAGAGCTCTACATTCCAAGGAAATGgtatatatca ... atttgtttagCTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT
EST: gi|124784177|gb|EH873939.1|EH873939
EST:     GACGCAGGTCAGGTCACAGAGCTCTACATTCCAAGGAAATG                         CTCGGCAACAAACAGAA
genomic: GACGCAGGTCAGGTCACAGAGCTCTACATTCCAAGGAAATGgtatatatca ... atttgtttagCTCGGCAACAAACAGAA
EST: gi|164124668|gb|ES046741.1|ES046741
EST:     CCAAGGAAATG                         CTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT
genomic: CCAAGGAAATGgtatatatca ... atttgtttagCTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT
EST: gi|86086803|gb|DR382562.1|DR382562
EST:     ATGGAGAACGACGCAGGTCAGGTCACAGAGCTNTACATTCCAAGGAAATG                         CTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT
genomic: ATGGAGAACGACGCAGGTCAGGTCACAGAGCTCTACATTCCAAGGAAATGgtatatatca ... atttgtttagCTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT
EST: gi|164193142|gb|ES001331.1|ES001331
EST:     TTCCAAGGAAATG                         CTCGGCAGCAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT
genomic: TTCCAAGGAAATGgtatatatca ... atttgtttagCTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttaattaagtagcctaagctgattctattgttgtgtaatggtaatttgtttagCTCGGCAACAAACAGAATGATCACATCAAAGGATCATGCTTCAGTTCAGCTTAACATTGGTCATCTTGATGCTAATGGTCTCTACACTGGCCAATTCACC
                                              tttgttt  CT-rich tract
                                           taatttgttta  TA-rich tract