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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagatcatgaagttatatactttggtttgaaagtggttagtttacaattcttgttttctaactttcagGCTCAACCTTGAACTATTTCTTGGATGATAAGATCAACAAAGCCGAGATCCTTTTCCCCGGTGTGGCCTGTTTCTTGATCGCGGTTTGTCTTGGTTCAGC

Basic information

species Arabidopsis thaliana
transcript AT2G03530.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G03530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G12980.1 (Glycine max), 3'ss of exon 2
------------------gttagatcatgaagt-tatatactttggtttgaa-----agtggttagt----ttacaattcttgttttctaactt--tcagGCTCAACCTTGAACTATTTCTTGGATGATAAGATCAACAAAGCCGAGATCCTTTTCCCCGGTGTGGCCTGTTTCTTGATCGCGGTTTGTCTTGGTTCAGC
                   | |     || | | | ||||  ||| | || |     |||  | | |    || || |  || | || | | |    ||||  |||| ||||| || || |||||||| |||||||||||||||||||| |||||||| || || |  || || ||||| || |||||||| ||||| ||
catactcaatagagaagtttcaatatctgcactgtttatagcttgctgtggacctctagtactgaatgtcattgcactgtttctgttgtgattgaaacagGAACAACATTGAATTACTTTTTGGATGACAAGATCAACAAAGCCGAGATTCTTTTCCCAGGAGTTGGTTGCTTTTTGATTGCTGTTTGTCTAGGTTCTGC

upper sequence: AT2G03530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv01s0011g00530.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------------------gttagatcatgaagttatatactttggtttgaaagtggttagtttacaattcttgttttctaactttcagGCTCAACCTTGAACTATTTCTTGGATGATAAGATCAACAAAGCCGAGATCCTTTTCCCCGGTGTGGCCTGTTTCTTGATCGCGGTTTGTCTTGGTTCAGC
                                                         || ||| |   || | || ||   |       ||   | |  |  |  | ||||| |     || ||||| |||||||||| || ||| ||||||| || || || ||||||||||| |||||||| ||||| |  || |||||||| || ||||| ||||  || ||
gtcagtgtccatgggtgtgttggaagaactttagtttttttagctacattgcctttgtaaatcgtagtgtgacatgctactggaattttgtatattgccttaaccttttgttatgattgttgcagGCACAACCTTGAATTACTTCCTGGATGACAAAATTAATAAAGCCGAGATTCTTTTCCCTGGTGTTGGATGCTTCTTGATTGCTGTTTGCCTTGCCTCTGC
















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|124901727|gb|EH975807.1|EH975807
EST:     TCACTGTAGTCATAG                         GCTCAACCTTGAACTATTTCTTGGATGATAAGATCAACAAAGCCGAGATCC
genomic: TCACTGTAGTCATAGgttagatcat ... taactttcagGCTCAACCTTGAACTATTTCTTGGATGATAAGATCAACAAAGCCGAGATCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatactttggtttgaaagtggttagtttacaattcttgttttctaactttcagGCTCAACCTTGAACTATTTCTTGGATGATAAGATCAACAAAGCCGAGATCCTTTTCCCCGGTGTGGCCTGTTTCTTGATCGCGGTTTGTCTTGGTTCAGC
                                          ttctaac  putative branch site (score: 1)
                                  ttcttgttttct  CT-rich tract
                           tttacaatt  TA-rich tract