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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaactaacagatgcttcttcttttctctttgcatacctaatctctttctgaataacactcaaaggtttactttttctggtccagcagCAGCTTCAAATGATGATGGAAAGTTCCTTCTTGCTGCCAAGAGGTTTCGGAGGCCAACTTGCACTGACTACATCATCTCCTTAAACTGCGATGATGTCTC

Basic information

species Arabidopsis thaliana
transcript AT2G47900.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G47900.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s0426g00050.t01 (Vitis vinifera), 3'ss of exon 1
-----gtgaaactaacagatgcttcttcttttctctttgcatacctaatctctttctgaataac-actcaaaggtttactttt-tctggtccagcagCAGCTTCAAATGATGATGGAAAGTTCCTTCTTGCTGCCAAGAGGTTTCGGAGGCCAACTTGCACTGACTACATCATCTCCTTAAACTGCGATGATGTCTC---
      |  |    |||| |  ||           | ||  | |    |  |||| ||| |    | | ||   ||| ||||| |||  ||      ||||||||| ||||||||||||||| |||||||||||   ||  | | |  | || |||| ||| ||| | ||||||||  | ||    | |||||| |    
aggatatttagaagacaggtttttagaagacaggttctgttttcgagtttcctttttgagttgtgatttaactttttgcttttgtcttatctgttgacagCTTCAACTGATGATGGAAAGTTTCTTCTTGCTGCATGGAACTGTAGATGTCCTACTTTCACAGACGATATCATCTCTCTTAATGCTGGTGATGTTTGGAA

upper sequence: AT2G47900.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0104g01290.t01 (Vitis vinifera), 3'ss of exon 2
---gtgaaacta-acagatgcttcttcttttctctttgcatacctaatctctttctgaataacactcaaaggttt---actttttctggtccagcagCAGCTTCAAATGATGATGGAAAGTTCCTTCTTGCTGCCAAGAGGTTTCGGAGGCCAACTTGCACTGACTACATCATCTCCTTAAACTGCGATGATGTCTC---
    | ||     | |  |         ||||| ||| |    ||| | | |        ||   |  ||  |||     ||| |||| ||       |||||||| ||||||||||||||| |||||||||||   || || | |  | || |||||||| ||||| ||||||||  | ||    |||||||| ||   
attatcaagtaggatatttagaagacagtttctgttttcgagtctactttttgagctgtaaatgttttaacttttttggttttgtctgatctgttgatagCTTCAACTGATGATGGAAAGTTTCTTCTTGCTGCACGGAAGTGTAGACGTCCTACTTGCACAGACTATATCATCTCTCTTAATGCTGATGATGTTTCCAA

upper sequence: AT2G47900.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv12s0028g00190.t01 (Vitis vinifera), 3'ss of exon 1
gtgaaactaacagatgcttcttcttttctctttgcatacctaatctctttctgaat----aacactcaaaggttt--actttt-tctggtccagcagCAGCTTCAAATGATGATGGAAAGTTCCTTCTTGCTGCCAAGAGGTTTCGGAGGCCAACTTGCACTGACTACATCATCTCCTTAAACTGCGATGATGTCTC---
 |  |    |||| |  ||      |    | |   | |    |  |||| | |      ||   |  ||  |||   ||||| |||  ||       |||||||| ||||||||||||||| |||||||||||   ||  | | |  | || |||||||  ||| | ||||||||  | ||    |||||||| |    
atttagtagacaggtttttagaagataggttctatttccgagtttcctttttaagctgtaaatgttttaacttttttgcttttgtcttatctgttgatagCTTCAACTGATGATGGAAAGTTTCTTCTTGCTGCATGGAATTGTAGACGTCCTACTTGCATAGACGATATCATCTCTCTTAATACTGATGATGTTTAGAA

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|125055259|gb|EL125572.1|EL125572
EST:     GAGAAACCGCAGCAATCAAACCTACTATCTATACCTCGGGTTAAACCAAG                         CAGCTTCAAATGATGATGGAAAGTTCC
genomic: GAGAAACCGCAGCAATCAAACCTACTATCTATACCTCGGGTTAAACCAAGgtgaaactaa ... ggtccagcagCAGCTTCAAATGATGATGGAAAGTTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacctaatctctttctgaataacactcaaaggtttactttttctggtccagcagCAGCTTCAAATGATGATGGAAAGTTCCTTCTTGCTGCCAAGAGGTTTCGGAGGCCAACTTGCACTGACTACATCATCTCCTTAAACTGCGATGATGTCTC
                 gaataac  putative branch site (score: 2)
                                     ctttttctg  putative PPT
                                 tttacttttt  TA-rich tract